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rnao.obo
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format-version: 1.2
date: 17:05:2010 23:35autogenerated-by: owl2obo.xsl (http://rnao.googlecode.com/svn/trunk/owl2obo.xsl)
[Term]
id: CHEBI:15901
name: 5,6-dihydrouracil nucleobase
is_a: RNAO:0000479
relationship: has_functional_parent RNAO:0000026
[Term]
id: CHEBI:16020
name: 1-methyladenosine residue
is_a: RNAO:0000531
relationship: has_functional_parent RNAO:0000037
[Term]
id: CHEBI:16289
name: beta-D-galactosyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:17368
name: hypoxanthine nucleobase
is_a: RNAO:0000477
relationship: has_functional_parent RNAO:0000027
[Term]
id: CHEBI:17596
name: inosine residue
is_a: RNAO:0000531
relationship: has_functional_parent RNAO:0000037
[Term]
id: CHEBI:17802
name: pseudouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:19062
name: 1-methylguanosine residue
is_a: RNAO:0000532
relationship: has_functional_parent RNAO:0000038
[Term]
id: CHEBI:19065
name: 1-methylinosine residue
is_a: RNAO:0000531
relationship: has_functional_parent RNAO:0000037
[Term]
id: CHEBI:19068
name: 1-methylpseudouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:19227
name: 2prime-O-methyluridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:19228
name: 2prime-O-methylcytidine residue
is_a: RNAO:0000533
relationship: has_functional_parent RNAO:0000035
[Term]
id: CHEBI:19229
name: 2prime-O-methylguanosine residue
is_a: RNAO:0000532
relationship: has_functional_parent RNAO:0000038
[Term]
id: CHEBI:19231
name: 2prime-O-methylpseudouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:19289
name: N2,N2-dimethylguanosine residue
is_a: RNAO:0000532
relationship: has_functional_parent RNAO:0000038
[Term]
id: CHEBI:19688
name: 2-methyladenosine residue
is_a: RNAO:0000531
relationship: has_functional_parent RNAO:0000037
[Term]
id: CHEBI:19702
name: N2-methylguanosine residue
is_a: RNAO:0000532
relationship: has_functional_parent RNAO:0000038
[Term]
id: CHEBI:19780
name: 2-thiocytidine residue
is_a: RNAO:0000533
relationship: has_functional_parent RNAO:0000035
[Term]
id: CHEBI:19928
name: 3-(3-amino-3-carboxypropyl)uridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20129
name: 3-methylcytidine residue
is_a: RNAO:0000533
relationship: has_functional_parent RNAO:0000035
[Term]
id: CHEBI:20305
name: N4-acetylcytidine residue
is_a: RNAO:0000533
relationship: has_functional_parent RNAO:0000035
[Term]
id: CHEBI:20480
name: 4-thiouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20530
name: 5-(carboxyhydroxymethyl)uridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20555
name: 5-carboxymethylaminomethyl-2-thiouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20597
name: 5-methoxycarbonylmethyl-2-thiouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20598
name: 5-methoxycarbonylmethyluridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20601
name: 5-methoxyuridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20602
name: 5-methyl-2-thiouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:20607
name: 5-methylcytidine residue
is_a: RNAO:0000533
relationship: has_functional_parent RNAO:0000035
[Term]
id: CHEBI:20794
name: 7-methylguanosine residue
is_a: RNAO:0000532
relationship: has_functional_parent RNAO:0000038
[Term]
id: CHEBI:21891
name: N6-methyladenosine residue
is_a: RNAO:0000531
relationship: has_functional_parent RNAO:0000037
[Term]
id: CHEBI:22453
name: glutamyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:22832
name: 3-amino-3-carboxypropyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:23004
name: carbamoyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:23774
name: dihydrouridine residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:24433
name: group
is_a: RNAO:0000158
[Term]
id: CHEBI:24712
name: hydroxymethyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:25170
name: mannosyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:25805
name: oxygen atom
is_a: CHEBI:33250
[Term]
id: CHEBI:25935
name: hydroperoxyl
is_a: CHEBI:24433
[Term]
id: CHEBI:26248
name: prenyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:26565
name: ribosyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:26861
name: tauryl group
is_a: CHEBI:24433
[Term]
id: CHEBI:27240
name: uridine 5-oxyacetic acid residue
is_a: RNAO:0000534
relationship: has_functional_parent RNAO:0000036
[Term]
id: CHEBI:27594
name: carbon atom
is_a: CHEBI:33250
[Term]
id: CHEBI:28284
name: N6,N6-dimethyladenosine residue
is_a: RNAO:0000531
relationship: has_functional_parent RNAO:0000037
[Term]
id: CHEBI:28659
name: phosphorous atom
is_a: CHEBI:33250
[Term]
id: CHEBI:29235
name: hydrogen atom
is_a: CHEBI:33250
[Term]
id: CHEBI:29351
name: nitrogen atom
is_a: CHEBI:33250
[Term]
id: CHEBI:32875
name: methyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:32958
name: phosphate group
is_a: CHEBI:24433
[Term]
id: CHEBI:33250
name: atom
is_a: snap#MaterialEntity
[Term]
id: CHEBI:37900
name: threonyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:37903
name: lysyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:40574
name: acetyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:41402
name: carboxymethyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:42485
name: formyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:43176
name: hydroxy group
is_a: CHEBI:24433
[Term]
id: CHEBI:44209
name: methylamino group
is_a: CHEBI:24433
[Term]
id: CHEBI:44520
name: methoxy group
is_a: CHEBI:24433
[Term]
id: CHEBI:46629
name: oxo group
is_a: CHEBI:24433
[Term]
id: CHEBI:46740
name: glycyl group
is_a: CHEBI:24433
[Term]
id: CHEBI:46882
name: amino group
is_a: CHEBI:24433
[Term]
id: CHEBI:46883
name: carboxy group
is_a: CHEBI:24433
[Term]
id: CHEBI:48819
name: cyano group
is_a: CHEBI:24433
[Term]
id: RNAO:0000000
name: ribonucleic acid
is_a: RNAO:0000201
[Term]
id: RNAO:0000001
name: base pair
def: "A base pair consists of a pair of nucleotide residues that interact by nucleoside edge to nucleoside edge hydrogen bonds." [RNAO:ROC]
is_a: snap#MaterialEntity
[Term]
id: RNAO:0000002
name: deoxyribose ring
def: "A ribose ring that does not have a hydroxy group at the 2prime position." [RNAO:ROC]
is_a: RNAO:0000147
[Term]
id: RNAO:0000003
name: family 1 base pair
def: "A family_1_base_pair is an RNAO_base_pair in which the two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Watson-Crick edges of each base and in which the glycosidic bonds of the two nucleotides are oriented "cis" relative to each other." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000004
name: family 2 base pair
def: "A family_2_base_pair is an RNAO_base_pair in which the two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Watson-Crick edges of each base and in which the glycosidic bonds of the two nucleotides are oriented "trans" relative to each other." [RNAO:ROC]
is_a: RNAO:0000117
[Term]
id: RNAO:0000005
name: family 3 base pair
def: "A family_3_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Watson-Crick edge of one base and the Hoogsteen edge of the other base and in which the glycosidic bonds of the two nucleotides are oriented "cis" relative to each other." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000006
name: family 4 base pair
def: "A family_4_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Watson-Crick edge of one base and the Hoogsteen edge of the other base and in which the glycosidic bonds of the two nucleotides are oriented "trans" relative to each other." [RNAO:ROC]
is_a: RNAO:0000117
[Term]
id: RNAO:0000007
name: family 5 base pair
def: "A family_5_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Watson-Crick edge of one base and the Sugar edge of the other base and in which the glycosidic bonds of the two nucleotides are oriented "cis" relative to each other." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000008
name: family 6 base pair
def: "A family_6_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Watson-Crick edge of one base and the Sugar edge of the other base and in which the glycosidic bonds of the two nucleotides are oriented "trans" relative to each other." [RNAO:ROC]
is_a: RNAO:0000117
[Term]
id: RNAO:0000009
name: family 7 base pair
def: "A family_7_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Hoogsteen edges of each base and in which the glycosidic bonds of the two nucleotides are oriented "cis" relative to each other." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000010
name: family 8 base pair
def: "A family_8_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Hoogsteen edges of each base and in which the glycosidic bonds of the two nucleotides are oriented "trans" relative to each other." [RNAO:ROC]
is_a: RNAO:0000117
[Term]
id: RNAO:0000011
name: family 9 base pair
def: "A family_9_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Hoogsteen edge of one base and the Sugar edge of the other base and in which the glycosidic bonds of the two nucleotides are oriented "cis" relative to each other." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000012
name: family 10 base pair
def: "A family_10_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Hoogsteen edge of one base and the Sugar edge of the other base and in which the glycosidic bonds of the two nucleotides are oriented "trans" relative to each other." [RNAO:ROC]
is_a: RNAO:0000117
[Term]
id: RNAO:0000013
name: family 11 base pair
def: "A family_11_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Sugar edges of each base and in which the glycosidic bonds of the two nucleotides are oriented "cis" relative to each other." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000014
name: family 12 base pair
def: "A family_12_base_pair is an RNAO_base_pair in which two RNA nucleotides interact by edge-to-edge hydrogen-bonding between the Sugar edges of each base and in which the glycosidic bonds of the two nucleotides are oriented "trans" relative to each other." [RNAO:ROC]
is_a: RNAO:0000117
[Term]
id: RNAO:0000015
name: RNA suite
is_a: RNAO:0000158
relationship: ro.owl#part_of RNAO:0000000
relationship: ro.owl#has_quality RNAO:0000200
[Term]
id: RNAO:0000016
name: canonical RNA base pair
def: "An RNAO_base_pair which has cis-Watson--Crick pairing and where the participating bases are AU, CG, GC or UA." [RNAO:ROC]
is_a: RNAO:0000116
[Term]
id: RNAO:0000017
name: nucleobase
def: "A nucleobase is an N-heterocyclic group that forms part of a nucleoside residue." [RNAO:ROC]
is_a: RNAO:0000158
relationship: ro.owl#part_of RNAO:0000186
[Term]
id: RNAO:0000018
name: phosphate moiety
def: "A phosphate group consists of a phosphorus atom doubly-bonded to two oxygen atoms and singly-bonded to two oxygen atoms, both of which have a free valence. Unlike the phosphate group in ChEBI (CHEBI:32958), the RNAO phosphate group has two free valences." [RNAO:ROC]
is_a: RNAO:0000158
[Term]
id: RNAO:0000019
name: ribonucleoside residue
def: "A ribonucleoside consists of a nitrogen heterocycle (a nucleobase) covalently bonded to a ribose ring, with free valences at the 3prime oxgen and 5prime oxygen atoms on the ring." [RNAO:ROC]
is_a: RNAO:0000186
relationship: RNAO:0000222 RNAO:0000021
[Term]
id: RNAO:0000020
name: ribonucleotide residue
def: "A ribonucleotide residue consists of a nitrogen heterocyclic group covalently bonded to the 1prime position of a ribose ring and a phosphate group covalently bonded the 5' oxygen of the ribose ring. There are free valances at the 3'-oxygen of the ribose and on the phosphorus atom of the phosphate group where the ribonucleotide is connected to two other ribonucleotides in the chain." [RNAO:ROC]
is_a: RNAO:0000187
[Term]
id: RNAO:0000021
name: ribose ring
def: "A ribose ring is a furanose ring with free valences at the 4prime position (to bond to the nucleobase), and the 3prime and 5prime positions." [RNAO:ROC]
is_a: RNAO:0000147
[Term]
id: RNAO:0000022
name: 2prime hydroxyl group
is_a: RNAO:0000158
relationship: ro.owl#part_of RNAO:0000021
[Term]
id: RNAO:0000023
name: purine nucleobase
def: "A purine nucleobase is a heterocyclic group consisting of a five-membered aromatic ring ortho,para-fused to a six-membered aromatic ring and where the atoms at the 1-, 3-, 7- and 9- positions are nitrogen atoms." [RNAO:ROC]
is_a: RNAO:0000017
[Term]
id: RNAO:0000024
name: pyrimidine nucleobase
def: "A pyrimidine nucleobase is a heterocyclic group consisting of a six-membered ring where the atoms at the 1- and 3-positions are nitrogen atoms." [RNAO:ROC]
is_a: RNAO:0000017
[Term]
id: RNAO:0000025
name: cytosine nucleobase
def: "A cytosine nucleobase is a pyrimidine that contains a 4-amino group and a 2-oxo group and has a free valence at the 1-position." [RNAO:ROC]
is_a: RNAO:0000024
[Term]
id: RNAO:0000026
name: uracil nucleobase
def: "A uracil nucleobase is a pyrimidine nucleobase that contains a 2-oxo group and a 4-oxo group and has a free valence at the 1-position." [RNAO:ROC]
is_a: RNAO:0000024
[Term]
id: RNAO:0000027
name: adenine nucleobase
def: "An adenine nucleobase is a purine nucleobase that contains a 6-amino group and a free valence at the 9-position." [RNAO:ROC]
is_a: RNAO:0000023
[Term]
id: RNAO:0000028
name: guanine nucleobase
def: "A guanine nucleobase is a purine nucleobase that contains a 2-amino group, a 6-oxo group and a free valence at the 9-position." [RNAO:ROC]
is_a: RNAO:0000023
[Term]
id: RNAO:0000029
name: 22 conformation
is_a: RNAO:0000200
[Term]
id: RNAO:0000030
name: 23 conformation
is_a: RNAO:0000200
[Term]
id: RNAO:0000031
name: 32 conformation
is_a: RNAO:0000200
[Term]
id: RNAO:0000032
name: purine ribonucleoside residue
is_a: RNAO:0000019
[Term]
id: RNAO:0000033
name: 33 conformation
is_a: RNAO:0000200
[Term]
id: RNAO:0000034
name: pyrimidine ribonucleoside residue
is_a: RNAO:0000019
[Term]
id: RNAO:0000035
name: cytidine residue
is_a: RNAO:0000034
[Term]
id: RNAO:0000036
name: uridine residue
is_a: RNAO:0000034
[Term]
id: RNAO:0000037
name: adenosine residue
is_a: RNAO:0000032
relationship: ro.owl#has_part RNAO:0000027
[Term]
id: RNAO:0000038
name: guanosine residue
is_a: RNAO:0000032
relationship: ro.owl#has_part RNAO:0000028
[Term]
id: RNAO:0000039
name: 1a conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000040
name: 1c conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000041
name: 1e conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000042
name: 1f conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000043
name: 1g conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000044
name: 1l conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000045
name: 1m conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000046
name: 3a conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000047
name: 3d conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000048
name: 5a conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000049
name: 5d conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000050
name: 5j conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000051
name: 5n conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000052
name: 7a conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000053
name: 7d conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000054
name: 9a conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000055
name: &a conformation
is_a: RNAO:0000033
[Term]
id: RNAO:0000056
name: 1[ conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000057
name: 1o conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000058
name: 1t conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000059
name: 3b conformation
name: 1z conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000060
name: 5p conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000061
name: 5q conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000062
name: 5r conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000063
name: 5z conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000064
name: 7p conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000065
name: 7r conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000066
name: 1b conformation
is_a: RNAO:0000031
[Term]
id: RNAO:0000067
name: 0a conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000068
name: 0i conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000069
name: 0k conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000070
name: 2a conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000071
name: 2g conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000072
name: 2h conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000073
name: 4a conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000074
name: 4d conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000075
name: 4g conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000076
name: 4n conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000077
name: 6d conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000078
name: 6g conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000079
name: 8d conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000080
name: 6n conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000081
name: 6j conformation
is_a: RNAO:0000030
[Term]
id: RNAO:0000082
name: 0b conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000083
name: 2[ conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000084
name: 2o conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000085
name: 2u conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000086
name: 2z conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000087
name: 4b conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000088
name: 4p conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000089
name: 4s conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000090
name: 6p conformation
is_a: RNAO:0000029
[Term]
id: RNAO:0000091
name: nucleoside edge
def: "A nucleoside edge is either a Watson-Crick edge or a Hoogsteen edge or a sugar edge." [RNAO:ROC]
is_a: RNAO:0000196
[Term]
id: RNAO:0000092
name: Watson-Crick edge
def: "The Watson-Crick edge of a nucleobase is the preferred edge along which it undergoes hydrogen bonding with other nucleobases." [RNAO:ROC]
is_a: RNAO:0000091
relationship: RNAO:0000350 RNAO:0000017
[Term]
id: RNAO:0000093
name: Hoogsteen edge
def: "The Hoogsteen edge of a nucleobase is the edge of the nucleobase which is not adjacent to the 2prime-hydroxyl group on the ribose ring." [RNAO:ROC]
is_a: RNAO:0000091
relationship: RNAO:0000350 RNAO:0000017
[Term]
id: RNAO:0000094
name: sugar edge
def: "The sugar edge of a nucleoside consists of the edge of the nucleobase adjacent ot the 2prime-hydroxyl group on the ribose ring and the 2prime-hydroxyl group on the ribose ring." [RNAO:ROC]
is_a: RNAO:0000091
relationship: RNAO:0000350 RNAO:0000019
[Term]
id: RNAO:0000095
name: paired region
def: "A collection of one or more adjacent nucleotide residues in which at least one residue is part of a base pair." [RNAO:ROC]
is_a: RNAO:0000108
relationship: ro.owl#has_proper_part RNAO:0000001
[Term]
id: RNAO:0000096
name: unpaired region
def: "A collection of one or more nucleotides that are not involved in base pairing." [RNAO:ROC]
is_a: RNAO:0000108
[Term]
id: RNAO:0000097
name: unbroken stem
def: "A paired region made up of two contiguous collections of nucleotides, in which each nucleotide forms a base pair." [RNAO:ROC]
is_a: RNAO:0000095
[Term]
id: RNAO:0000098
name: terminal loop
def: "A contiguous sequence of nucleotide residues that directly links the two halves of an unbroken stem (but does not participate in the stem); this structure is also known as a "hairpin loop". Because a terminal loop may also participate in other inter-base interactions, (a) it is defined relative to a particular unbroken_stem, and (b) it is not implicitly defined as unpaired (or paired)." [RNAO:ROC]
is_a: RNAO:0000108
[Term]
id: RNAO:0000099
name: internal loop
def: "A collection of nucleotide residues that link two given unbroken_stems." [RNAO:ROC]
is_a: RNAO:0000108
[Term]
id: RNAO:0000100
name: purine ribonucleotide
is_a: RNAO:0000020
[Term]
id: RNAO:0000101
name: pyrimidine ribonucleotide
is_a: RNAO:0000020
[Term]
id: RNAO:0000102
name: cytidylate residue
is_a: RNAO:0000101
[Term]
id: RNAO:0000103
name: uridylate residue
is_a: RNAO:0000101
[Term]
id: RNAO:0000104
name: adenylate residue
is_a: RNAO:0000100
[Term]
id: RNAO:0000105
name: guanylate residue
is_a: RNAO:0000100
[Term]
id: RNAO:0000106
name: stem junction
def: "A collection of nucleotide residues consisting of all and only the nucleotide regions that link more than two unbroken stems such that each region links exactly two unbroken stems. This term is defined relative to the particular unbroken_stems involved and, again, does not imply anything about the pairedness/unpairedness of the bases in this region. The degree of a junction is a property (e.g. 3-junction, 4-junction), so the different degrees do not get separate entries in the ontology." [RNAO:ROC]
is_a: RNAO:0000108
[Term]
id: RNAO:0000107
name: strand end
def: "A sequence_region bounded at one end by the 5prime or 3prime end of the molecule, and at the other by an unbroken_stem." [RNAO:ROC]
is_a: RNAO:0000108
[Term]
id: RNAO:0000108
name: collection of nucleotides residues
def: "A collection of nucleotide residues is a part of a nucleic acid consisting of one or more nucleotides." [RNAO:ROC]
is_a: RNAO:0000182
relationship: ro.owl#part_of RNAO:0000201
[Term]
id: RNAO:0000109
name: 3prime end
is_a: RNAO:0000219
[Term]
id: RNAO:0000110
name: collection of material entities
is_a: snap#MaterialEntity
relationship: RNAO:0000354 snap#MaterialEntity
[Term]
id: RNAO:0000111
name: 5prime end
is_a: RNAO:0000219
[Term]
id: RNAO:0000112
name: conformation
def: "The spatial arrangement of the atoms in a molecule or molecular part affording distinction between stereoisomers which can be interconverted by rotations about formally single bonds." [RNAO:ROC]
is_a: snap#Quality
[Term]
id: RNAO:0000113
name: base pair orientation
def: "A conformation that inheres in an RNA base pair. It may be cis- or trans- depending on the orientations of the ribose rings relative to the edge-edge interaction of the nucleobases." [RNAO:ROC]
is_a: RNAO:0000112
[Term]
id: RNAO:0000114
name: base pair cis-orientation
def: "A base pair conformation where the ribose rings are on the same side of a plane drawn through the middle of the edge-edge hydrogen bonds." [RNAO:ROC]
is_a: RNAO:0000113
[Term]
id: RNAO:0000115
name: base pair trans-orientation
def: "A base pair conformation where the ribose rings are on opposite sides of a plane drawn through the middle of the edge-edge hydrogen bonds." [RNAO:ROC]
is_a: RNAO:0000113
[Term]
id: RNAO:0000116
name: cis-oriented base pair
is_a: RNAO:0000001
[Term]
id: RNAO:0000117
name: trans-oriented base pair