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ONTOLOGY REPORT - ANNOTATIONS

Term:collagen biosynthetic process
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Accession:GO:0032964 term browser browse the term
Definition:The chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%).
Synonyms:exact_synonym: collagen anabolism;   collagen biosynthesis;   collagen formation;   collagen synthesis


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collagen biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Adamts3 ADAM metallopeptidase with thrombospondin type 1, motif 3 involved_in ISO (PMID:11408482) RGD PMID:11408482 NCBI chr14:18,231,128...18,437,771
Ensembl chr14:18,231,165...18,435,556 		JBrowse link
G Arg1 arginase 1 IMP RGD PMID:20107769 RGD:4143276 NCBI chr 1:20,475,878...20,488,422
Ensembl chr 1:20,475,968...20,488,422 		JBrowse link
G Col1a1 collagen type I alpha 1 chain involved_in ISO (PMID:15095409) RGD PMID:15095409 NCBI chr10:79,883,622...79,900,625
Ensembl chr10:79,883,622...79,900,624 		JBrowse link
G Col5a1 collagen type V alpha 1 chain involved_in ISO
IEA		 (PMID:11278977), (PMID:15095409)
GO_REF:0000107		 RGD
Ensembl		 PMID:11278977 PMID:15095409 GO_REF:0000107 NCBI chr 3:11,208,429...11,356,715
Ensembl chr 3:11,208,512...11,354,588 		JBrowse link
G Fosl2 FOS like 2, AP-1 transcription factor subunit involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:3757560 (PMID:20837772)		 Ensembl
RGD		 PMID:20837772 GO_REF:0000107 NCBI chr 6:24,297,898...24,319,219
Ensembl chr 6:24,300,956...24,320,034 		JBrowse link
G P3h3 prolyl 3-hydroxylase 3 involved_in ISO (MGI:5888787|PMID:28115524)
(PMID:28115524)		 RGD PMID:28115524 MGI:5888787 NCBI chr 4:157,646,242...157,662,035
Ensembl chr 4:157,646,243...157,662,035 		JBrowse link
G P3h4 prolyl 3-hydroxylase family member 4 involved_in ISS
IEA
ISO		 GO_REF:0000024
GO_REF:0000107
(MGI:5779580|PMID:27119146)		 UniProt
Ensembl
RGD		 PMID:27119146 GO_REF:0000024 GO_REF:0000107 MGI:5779580 NCBI chr10:85,338,158...85,345,108
Ensembl chr10:85,338,161...85,345,093 		JBrowse link
G Rcn3 reticulocalbin 3 involved_in ISO
ISS
IEA		 (PMID:28939891)
GO_REF:0000024
GO_REF:0000107		 RGD
UniProt
Ensembl		 PMID:28939891 GO_REF:0000024 GO_REF:0000107 NCBI chr 1:95,564,503...95,573,762
Ensembl chr 1:95,564,380...95,573,725 		JBrowse link
G Serpinh1 serpin family H member 1 acts_upstream_of_or_within ISO MGI:2385994 (PMID:10995453) RGD PMID:10995453 NCBI chr 1:153,643,500...153,650,853
Ensembl chr 1:153,643,510...153,650,801 		JBrowse link
G Tmem131 transmembrane protein 131 involved_in ISO
IEA		 (PMID:32095531)
GO_REF:0000107		 RGD
Ensembl		 PMID:32095531 GO_REF:0000107 NCBI chr 9:39,016,470...39,162,841
Ensembl chr 9:39,016,485...39,162,964 		JBrowse link
G Tram2 translocation associated membrane protein 2 involved_in ISO (PMID:14749390) RGD PMID:14749390 NCBI chr 9:23,419,204...23,498,745
Ensembl chr 9:23,424,232...23,498,689 		JBrowse link
G Trappc8 trafficking protein particle complex subunit 8 involved_in ISO
IEA		 (PMID:32095531)
GO_REF:0000107		 RGD
Ensembl		 PMID:32095531 GO_REF:0000107 NCBI chr18:12,103,874...12,180,422
Ensembl chr18:12,103,877...12,180,107 		JBrowse link
negative regulation of collagen biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Adora2b adenosine A2B receptor IMP RGD PMID:9535419 RGD:2316149 NCBI chr10:46,940,394...46,956,772
Ensembl chr10:46,940,384...46,956,772 		JBrowse link
G Ager advanced glycosylation end product-specific receptor IMP RGD PMID:21872885 RGD:7245949 NCBI chr20:4,148,150...4,151,361
Ensembl chr20:4,147,890...4,151,078 		JBrowse link
G Cygb cytoglobin IDA RGD PMID:20719976 RGD:9685174 NCBI chr10:101,877,675...101,887,442
Ensembl chr10:101,877,676...101,887,442 		JBrowse link
G Cyp2j4 cytochrome P450, family 2, subfamily j, polypeptide 4 IMP RGD PMID:25840911 PMID:29656108 RGD:12904676, RGD:150520032 NCBI chr 5:111,179,981...111,207,490
Ensembl chr 5:111,178,703...111,244,794 		JBrowse link
G Cyp7a1 cytochrome P450 family 7 subfamily A member 1 IMP RGD PMID:15521018 RGD:15045602 NCBI chr 5:19,376,979...19,386,676
Ensembl chr 5:19,376,974...19,386,688 		JBrowse link
G Emilin1 elastin microfibril interfacer 1 involved_in ISO (MGI:5605894|PMID:25056700) RGD PMID:25056700 MGI:5605894 NCBI chr 6:25,455,974...25,463,713
Ensembl chr 6:25,445,298...25,463,698 		JBrowse link
G Errfi1 ERBB receptor feedback inhibitor 1 IMP RGD PMID:19204184 RGD:9685562 NCBI chr 5:161,323,981...161,337,289
Ensembl chr 5:161,323,998...161,337,282 		JBrowse link
G Fn1 fibronectin 1 IMP RGD PMID:15980055 RGD:1625201 NCBI chr 9:73,196,044...73,264,695
Ensembl chr 9:73,196,044...73,264,678 		JBrowse link
G Got1 glutamic-oxaloacetic transaminase 1 IMP RGD PMID:26880260 RGD:13504840 NCBI chr 1:242,357,293...242,381,535
Ensembl chr 1:242,357,306...242,380,633 		JBrowse link
G Il6 interleukin 6 involved_in ISO (PMID:12419823) RGD PMID:12419823 NCBI chr 4:5,214,602...5,219,178
Ensembl chr 4:5,213,394...5,219,178 		JBrowse link
G Il6r interleukin 6 receptor involved_in ISO (PMID:12419823) RGD PMID:12419823 NCBI chr 2:175,289,157...175,347,719
Ensembl chr 2:175,298,686...175,347,536 		JBrowse link
G Mir218-2 microRNA 218-2 involved_in ISO (PMID:19913496) RGD PMID:19913496 NCBI chr10:20,068,451...20,068,560
Ensembl chr10:20,068,451...20,068,560 		JBrowse link
G Mir29a microRNA 29a involved_in ISO (PMID:20067797) RGD PMID:20067797 NCBI chr 4:59,650,608...59,650,695 JBrowse link
G Mir29b1 microRNA 29b-1 involved_in ISO UniProtKB:P01137 (PMID:19913496), (PMID:22269326), (PMID:23221517) RGD PMID:19913496 PMID:22269326 PMID:23221517 NCBI chr 4:59,650,987...59,651,067
Ensembl chr 4:59,650,986...59,651,067 		JBrowse link
G Mir29b2 microRNA 29b-2 involved_in ISO UniProtKB:P01137 (PMID:19913496), (PMID:22269326), (PMID:23221517) RGD PMID:19913496 PMID:22269326 PMID:23221517 NCBI chr13:106,570,371...106,570,451
Ensembl chr13:106,570,367...106,570,456 		JBrowse link
G Notch1 notch receptor 1 IMP RGD PMID:28100501 RGD:152995503 NCBI chr 3:9,277,955...9,323,531
Ensembl chr 3:9,278,086...9,323,531 		JBrowse link
G Nppc natriuretic peptide C IDA RGD PMID:12746286 RGD:1580115 NCBI chr 9:87,320,051...87,324,251
Ensembl chr 9:87,320,051...87,324,251 		JBrowse link
G Nr1h4 nuclear receptor subfamily 1, group H, member 4 IMP RGD PMID:15980055 RGD:1625201 NCBI chr 7:23,846,122...23,942,085
Ensembl chr 7:23,846,122...23,942,047 		JBrowse link
G Ppard peroxisome proliferator-activated receptor delta IMP RGD PMID:17346664 RGD:2324888 NCBI chr20:6,298,785...6,363,970
Ensembl chr20:6,298,785...6,363,968 		JBrowse link
G Pparg peroxisome proliferator-activated receptor gamma IMP RGD PMID:16202214 RGD:8553021 NCBI chr 4:148,423,102...148,548,471
Ensembl chr 4:148,423,194...148,548,468 		JBrowse link
G Rap1a RAP1A, member of RAS oncogene family IMP RGD PMID:22012077 RGD:9850086 NCBI chr 2:193,208,631...193,286,513
Ensembl chr 2:193,208,635...193,286,501 		JBrowse link
G Rapgef3 Rap guanine nucleotide exchange factor 3 IMP RGD PMID:22012077 RGD:9850086 NCBI chr 7:128,875,772...128,898,203
Ensembl chr 7:128,875,773...128,898,521 		JBrowse link
positive regulation of collagen biosynthetic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acvr1b activin A receptor type 1B IMP RGD PMID:27477354 RGD:151665478 NCBI chr 7:132,286,266...132,329,679
Ensembl chr 7:132,286,275...132,329,673 		JBrowse link
G Arrb2 arrestin, beta 2 IMP RGD PMID:28274926 RGD:13506828 NCBI chr10:55,146,887...55,154,854
Ensembl chr10:55,146,818...55,154,850 		JBrowse link
G Bmp4 bone morphogenetic protein 4 involved_in IEA
ISO
ISS		 GO_REF:0000107
(PMID:17720811)
GO_REF:0000024		 Ensembl
RGD
UniProt		 PMID:17720811 GO_REF:0000024 GO_REF:0000107 NCBI chr15:19,618,538...19,633,494
Ensembl chr15:19,618,542...19,623,306 		JBrowse link
G Cbx8 chromobox 8 IMP RGD PMID:23572236 RGD:9586727 NCBI chr10:104,294,518...104,296,956
Ensembl chr10:104,294,518...104,297,024 		JBrowse link
G Ccl2 C-C motif chemokine ligand 2 IDA RGD PMID:8663511 RGD:8549527 NCBI chr10:67,005,424...67,007,222
Ensembl chr10:67,005,424...67,007,226 		JBrowse link
G Ccn2 cellular communication network factor 2 IMP RGD PMID:19570811 RGD:2314490 NCBI chr 1:20,802,199...20,805,315
Ensembl chr 1:20,802,199...20,805,734 		JBrowse link
G Creb3l1 cAMP responsive element binding protein 3-like 1 involved_in ISO
ISS
IEA		 (PMID:25310401)
GO_REF:0000024
GO_REF:0000107		 RGD
UniProt
Ensembl		 PMID:25310401 GO_REF:0000024 GO_REF:0000107 NCBI chr 3:77,952,589...77,993,513
Ensembl chr 3:77,952,540...77,993,456 		JBrowse link
G Ddr2 discoidin domain receptor tyrosine kinase 2 IMP
IDA		 RGD PMID:26674152 PMID:24938620 RGD:11554781, RGD:150429973 NCBI chr13:82,193,623...82,318,229
Ensembl chr13:82,195,463...82,317,363 		JBrowse link
G Dicer1 dicer 1 ribonuclease III IMP RGD PMID:24337369 RGD:150340618 NCBI chr 6:123,627,529...123,692,278
Ensembl chr 6:123,631,250...123,693,965 		JBrowse link
G Eng endoglin IMP RGD PMID:20156938 RGD:7257540 NCBI chr 3:15,934,566...15,972,618
Ensembl chr 3:15,934,518...15,973,230 		JBrowse link
G Ep300 E1A binding protein p300 IMP RGD PMID:18292803 RGD:2312266 NCBI chr 7:113,108,476...113,178,529
Ensembl chr 7:113,106,247...113,136,088
Ensembl chr 7:113,106,247...113,136,088 		JBrowse link
G F2 coagulation factor II, thrombin involved_in IEA
ISO		 GO_REF:0000107
(PMID:9639571)		 Ensembl
RGD		 PMID:9639571 GO_REF:0000107 NCBI chr 3:77,596,196...77,609,486
Ensembl chr 3:77,596,198...77,609,486 		JBrowse link
G F2r coagulation factor II (thrombin) receptor involved_in ISO
ISS
IEA		 (PMID:9639571)
GO_REF:0000024
GO_REF:0000107		 RGD
UniProt
Ensembl		 PMID:9639571 GO_REF:0000024 GO_REF:0000107 NCBI chr 2:26,869,343...26,885,856
Ensembl chr 2:26,868,404...26,885,870 		JBrowse link
G Gli2 GLI family zinc finger 2 IMP RGD PMID:26823780 RGD:155791684 NCBI chr13:29,946,882...30,163,589
Ensembl chr13:29,946,809...30,163,574 		JBrowse link
G Ihh Indian hedgehog signaling molecule acts_upstream_of_or_within ISO (PMID:10208865) RGD PMID:10208865 NCBI chr 9:76,504,315...76,510,532
Ensembl chr 9:76,504,315...76,510,532 		JBrowse link
G Il18 interleukin 18 IDA RGD PMID:20644901 RGD:4889158 NCBI chr 8:50,904,630...50,932,887
Ensembl chr 8:50,906,960...50,932,887 		JBrowse link
G Inhba inhibin subunit beta A IDA RGD PMID:27477354 RGD:151665478 NCBI chr17:49,091,635...49,111,573
Ensembl chr17:49,095,920...49,108,982 		JBrowse link
G Itga2 integrin subunit alpha 2 IMP RGD PMID:10867645 RGD:2307406 NCBI chr 2:46,520,345...46,621,487
Ensembl chr 2:46,523,948...46,621,481 		JBrowse link
G Larp6 La ribonucleoprotein 6, translational regulator involved_in ISO (PMID:21746880) RGD PMID:21746880 NCBI chr 8:61,183,744...61,205,548
Ensembl chr 8:61,184,116...61,205,535 		JBrowse link
G Ltbp1 latent transforming growth factor beta binding protein 1 IMP RGD PMID:9607192 RGD:10412058 NCBI chr 6:20,029,629...20,425,339
Ensembl chr 6:20,029,629...20,425,349 		JBrowse link
G Mir21 microRNA 21 IDA RGD PMID:29084974 RGD:41404715 NCBI chr10:71,405,257...71,405,348
Ensembl chr10:71,405,257...71,405,348 		JBrowse link
G Mkx mohawk homeobox acts_upstream_of_or_within ISO MGI:4461224 (PMID:20498044) RGD PMID:20498044 NCBI chr17:55,077,073...55,156,877
Ensembl chr17:55,077,540...55,156,124 		JBrowse link
G Myb MYB proto-oncogene, transcription factor IMP RGD PMID:15534927 RGD:11532676 NCBI chr 1:15,939,771...15,973,367
Ensembl chr 1:15,939,761...15,973,057 		JBrowse link
G Pdgfb platelet derived growth factor subunit B IMP RGD PMID:15358192 RGD:10449487 NCBI chr 7:111,539,444...111,557,984
Ensembl chr 7:111,540,345...111,557,984 		JBrowse link
G Pdgfrb platelet derived growth factor receptor beta IMP RGD PMID:15978205 RGD:2292205 NCBI chr18:54,499,962...54,538,840
Ensembl chr18:54,499,964...54,538,843 		JBrowse link
G Prdx5 peroxiredoxin 5 involved_in ISO (PMID:15276323) RGD PMID:15276323 NCBI chr 1:204,099,826...204,103,589
Ensembl chr 1:204,099,826...204,114,268 		JBrowse link
G Rgcc regulator of cell cycle involved_in ISO (PMID:19158077) RGD PMID:19158077 NCBI chr15:54,662,483...54,675,320
Ensembl chr15:54,662,483...54,681,141 		JBrowse link
G Scx scleraxis bHLH transcription factor involved_in ISO (MGI:4413438|PMID:18802027), (MGI:5294534|PMID:19362560) RGD PMID:18802027 PMID:19362560 MGI:4413438 MGI:5294534 NCBI chr 7:108,176,608...108,178,626
Ensembl chr 7:108,176,608...108,178,626 		JBrowse link
G Serpinb7 serpin family B member 7 IMP RGD PMID:21945418 RGD:7207383 NCBI chr13:23,369,830...23,442,205
Ensembl chr13:23,395,671...23,442,205 		JBrowse link
G Serpine1 serpin family E member 1 IMP RGD PMID:15828931 RGD:13208547 NCBI chr12:19,601,272...19,611,657
Ensembl chr12:19,601,272...19,611,657 		JBrowse link
G Serpinf2 serpin family F member 2 involved_in ISO (PMID:17958745)
(MGI:4453296|PMID:18436805)
(PMID:18436805)		 RGD PMID:17958745 PMID:18436805 MGI:4453296 NCBI chr10:60,272,400...60,280,506
Ensembl chr10:60,272,400...60,281,243 		JBrowse link
G Suco SUN domain containing ossification factor involved_in ISS
IEA
ISO		 GO_REF:0000024
GO_REF:0000107
(MGI:4452525|PMID:20440000)
(PMID:20440000)		 UniProt
Ensembl
RGD		 PMID:20440000 GO_REF:0000024 GO_REF:0000107 MGI:4452525 NCBI chr13:74,192,808...74,257,896
Ensembl chr13:74,193,573...74,257,896 		JBrowse link
G Tgfb1 transforming growth factor, beta 1 involved_in IMP
ISO
ISS		 RNAcentral:URS000024463E_9606 (PMID:11158066), (PMID:19734317), (PMID:22269326), (PMID:25310401)
GO_REF:0000024
(MGI:4820704|PMID:19734317)
(PMID:19734317)		 RGD
UniProt		 PMID:11158066 PMID:19734317 PMID:22269326 PMID:25310401 PMID:26923362 GO_REF:0000024 MGI:4820704, RGD:11073665 NCBI chr 1:81,196,532...81,212,848
Ensembl chr 1:81,196,532...81,212,847 		JBrowse link
G Tgfb3 transforming growth factor, beta 3 involved_in ISO
ISS		 (PMID:11158066)
GO_REF:0000024		 RGD
AgBase		 PMID:11158066 GO_REF:0000024 NCBI chr 6:105,704,058...105,726,661
Ensembl chr 6:105,704,236...105,726,564 		JBrowse link
G Ucn urocortin IDA RGD PMID:11087261 RGD:1642796 NCBI chr 6:25,238,120...25,238,950
Ensembl chr 6:25,238,120...25,238,950 		JBrowse link
G Uts2 urotensin 2 IDA RGD PMID:17184580 PMID:18475149 RGD:2306814, RGD:2306811 NCBI chr 5:161,450,846...161,456,235
Ensembl chr 5:161,450,846...161,456,237 		JBrowse link
G Vim vimentin involved_in IEA
ISO		 GO_REF:0000107
(PMID:21746880)		 Ensembl
RGD		 PMID:21746880 GO_REF:0000107 NCBI chr17:76,668,701...76,677,186
Ensembl chr17:76,668,647...76,677,187 		JBrowse link
G Wnt4 Wnt family member 4 involved_in ISO (PMID:17720811) RGD PMID:17720811 NCBI chr 5:149,513,573...149,535,415
Ensembl chr 5:149,514,018...149,532,859 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20134
    cellular process 19326
      metabolic process 12309
        collagen metabolic process 130
          collagen biosynthetic process 72
            negative regulation of collagen biosynthetic process 22
            positive regulation of collagen biosynthetic process 38
            regulation of collagen biosynthetic process + 60
paths to the root