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ONTOLOGY REPORT - ANNOTATIONS


Term:trabecula formation
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Accession:GO:0060343 term browser browse the term
Definition:The process of creating a trabecula in an organ. A trabecula is a small, often microscopic, tissue element in the form of a small beam, strut or rod, which generally has a mechanical function. Trabecula are usually but not necessarily, composed of dense collagenous tissue.
Synonyms:exact_synonym: trabeculation
 related_synonym: trabecula biogenesis



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bone trabecula formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Col1a1 collagen type I alpha 1 chain acts_upstream_of_or_within ISO MGI:97009 (MGI:3710444|PMID:17440987) RGD PMID:17440987 MGI:3710444 NCBI chr10:79,883,622...79,900,625
Ensembl chr10:79,883,622...79,900,624
JBrowse link
G Enpp1 ectonucleotide pyrophosphatase/phosphodiesterase 1 involved_in ISO MGI:1857079 (MGI:5661140|PMID:22359666) RGD PMID:22359666 MGI:5661140 NCBI chr 1:20,698,746...20,763,741
Ensembl chr 1:20,698,764...20,763,715
JBrowse link
G Fbn2 fibrillin 2 involved_in ISO (MGI:4836762|PMID:20855508) RGD PMID:20855508 MGI:4836762 NCBI chr18:51,499,737...51,703,976
Ensembl chr18:51,499,737...51,703,976
JBrowse link
G Mmp2 matrix metallopeptidase 2 involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
MGI:88467 (MGI:3710444|PMID:17440987)
Ensembl
RGD
PMID:17440987 GO_REF:0000107 MGI:3710444 NCBI chr19:14,154,657...14,182,870
Ensembl chr19:14,154,657...14,182,870
JBrowse link
G Msx2 msh homeobox 2 involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
MGI:1926381 (MGI:1355063|PMID:10742104)
Ensembl
RGD
PMID:10742104 GO_REF:0000107 MGI:1355063 NCBI chr17:11,097,214...11,102,879
Ensembl chr17:11,097,103...11,102,879
JBrowse link
G Ppargc1b PPARG coactivator 1 beta involved_in ISO (MGI:3838421|PMID:19252502) RGD PMID:19252502 MGI:3838421 NCBI chr18:54,758,891...54,861,103
Ensembl chr18:54,758,902...54,861,194
JBrowse link
G Sfrp1 secreted frizzled-related protein 1 involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
MGI:3045799 (MGI:3040721|PMID:14976225)
Ensembl
RGD
PMID:14976225 GO_REF:0000107 MGI:3040721 NCBI chr16:68,575,763...68,613,905
Ensembl chr16:68,575,763...68,614,286
JBrowse link
G Thbs3 thrombospondin 3 acts_upstream_of_or_within ISO MGI:3581964 (MGI:3581317|PMID:15964815) RGD PMID:15964815 MGI:3581317 NCBI chr 2:174,621,788...174,633,594
Ensembl chr 2:174,621,812...174,633,594
JBrowse link
G Vegfa vascular endothelial growth factor A acts_upstream_of_or_within ISO MGI:1931048 (MGI:5461755|PMID:22886301) RGD PMID:22886301 MGI:5461755 NCBI chr 9:14,955,300...14,970,641
Ensembl chr 9:14,955,300...14,970,641
JBrowse link
G Wnt10b Wnt family member 10B acts_upstream_of_or_within ISO MGI:3582610 (MGI:3574150|PMID:15728361) RGD PMID:15728361 MGI:3574150 NCBI chr 7:129,922,088...129,927,892
Ensembl chr 7:129,922,088...129,927,892
JBrowse link
heart trabecula formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Adamts1 ADAM metallopeptidase with thrombospondin type 1 motif, 1 involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
MGI:3609982 (MGI:3776329|PMID:18267097)
Ensembl
RGD
PMID:18267097 GO_REF:0000107 MGI:3776329 NCBI chr11:24,932,227...24,941,068
Ensembl chr11:24,931,761...24,941,103
JBrowse link
G Adgrg6 adhesion G protein-coupled receptor G6 involved_in IBA
ISO
PMID:21873635
(MGI:5516409|PMID:24082093)
RGD PMID:24082093 PMID:21873635 MGI:5516409, RGD:13792537 NCBI chr 1:8,812,889...8,954,239
Ensembl chr 1:8,812,904...8,954,123
JBrowse link
G Bmp10 bone morphogenetic protein 10 involved_in IEA
ISO
GO_REF:0000107
(MGI:3040529|PMID:15073151)
Ensembl
RGD
PMID:15073151 GO_REF:0000107 MGI:3040529 NCBI chr 4:119,872,066...119,877,694
Ensembl chr 4:119,872,045...119,878,627
JBrowse link
G Cav3 caveolin 3 acts_upstream_of_or_within ISO MGI:2684578 (MGI:3849772|PMID:19535499) RGD PMID:19535499 MGI:3849772 NCBI chr 4:145,582,168...145,598,142
Ensembl chr 4:145,582,060...145,598,137
JBrowse link
G Egln1 egl-9 family hypoxia-inducible factor 1 acts_upstream_of_or_within ISO MGI:3690045 (MGI:3689683|PMID:16966370) RGD PMID:16966370 MGI:3689683 NCBI chr19:52,867,914...52,907,169 JBrowse link
G Fhl2 four and a half LIM domains 2 acts_upstream_of_or_within ISO (PMID:15509787) RGD PMID:15509787 NCBI chr 9:45,388,979...45,462,530
Ensembl chr 9:45,388,981...45,431,192
JBrowse link
G Fkbp1a FKBP prolyl isomerase 1A involved_in ISO (MGI:1195585|PMID:9461216) RGD PMID:9461216 MGI:1195585 NCBI chr 3:140,040,359...140,060,107
Ensembl chr 3:140,040,278...140,060,743
JBrowse link
G Hey2 hes-related family bHLH transcription factor with YRPW motif 2 involved_in ISO (MGI:3703467|PMID:17259303) RGD PMID:17259303 MGI:3703467 NCBI chr 1:26,822,131...26,832,218
Ensembl chr 1:26,822,131...26,832,218
JBrowse link
G Nkx2-5 NK2 homeobox 5 involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
(MGI:3773736|PMID:16510504)
Ensembl
RGD
PMID:16510504 GO_REF:0000107 MGI:3773736 NCBI chr10:16,340,428...16,347,004
Ensembl chr10:16,344,159...16,346,934
JBrowse link
G Ovol2 ovo-like zinc finger 2 acts_upstream_of_or_within ISO MGI:3777011 (MGI:3776202|PMID:17573777) RGD PMID:17573777 MGI:3776202 NCBI chr 3:131,677,388...131,707,844
Ensembl chr 3:131,677,391...131,708,359
JBrowse link
G Rbp4 retinol binding protein 4 involved_in ISO (MGI:2655947|PMID:12663486) RGD PMID:12663486 MGI:2655947 NCBI chr 1:235,893,917...235,901,315
Ensembl chr 1:235,893,917...235,901,399
JBrowse link
G Smarca4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 acts_upstream_of_or_within ISO MGI:109249 (MGI:3776329|PMID:18267097) RGD PMID:18267097 MGI:3776329 NCBI chr 8:20,167,717...20,258,975
Ensembl chr 8:20,167,717...20,258,975
JBrowse link
G Srf serum response factor acts_upstream_of_or_within ISO MGI:3522206|MGI:3522214 (MGI:3513738|PMID:15569937) RGD PMID:15569937 MGI:3513738 NCBI chr 9:14,426,453...14,435,734
Ensembl chr 9:14,426,472...14,435,733
JBrowse link
G Tek TEK receptor tyrosine kinase involved_in ISO (MGI:68132|PMID:7958865) RGD PMID:7958865 MGI:68132 NCBI chr 5:109,607,077...109,733,805
Ensembl chr 5:109,607,077...109,733,804
JBrowse link
G Tgfbr3 transforming growth factor beta receptor 3 involved_in ISO (MGI:2663364|PMID:12773577) RGD PMID:12773577 MGI:2663364 NCBI chr14:2,489,397...2,665,383
Ensembl chr14:2,489,397...2,663,341
JBrowse link
negative regulation of bone trabecula formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Chad chondroadherin involved_in
acts_upstream_of_or_within
IEA
ISO
GO_REF:0000107
MGI:5529270 (MGI:5525032|PMID:23755099)
Ensembl
RGD
PMID:23755099 GO_REF:0000107 MGI:5525032 NCBI chr10:79,512,170...79,515,941
Ensembl chr10:79,511,931...79,515,940
JBrowse link
G Cyp27b1 cytochrome P450, family 27, subfamily b, polypeptide 1 IMP RGD PMID:32231239 RGD:32716373 NCBI chr 7:62,869,340...62,876,242
Ensembl chr 7:62,871,297...62,876,241
JBrowse link
G Grem1 gremlin 1, DAN family BMP antagonist involved_in ISO (PMID:15539560) RGD PMID:15539560 NCBI chr 3:100,512,317...100,524,001
Ensembl chr 3:100,512,313...100,524,082
JBrowse link
G Vdr vitamin D receptor IMP RGD PMID:32231239 RGD:32716373 NCBI chr 7:128,987,981...129,037,677
Ensembl chr 7:128,987,981...129,037,677
JBrowse link
spleen trabecula formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Slc40a1 solute carrier family 40 member 1 acts_upstream_of_or_within
involved_in
ISO
IEA
MGI:1889622 (MGI:3578034|PMID:15342464)
GO_REF:0000107
RGD
Ensembl
PMID:15342464 GO_REF:0000107 MGI:3578034 NCBI chr 9:48,033,526...48,053,876
Ensembl chr 9:48,033,526...48,051,481
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19497
    developmental process 6889
      anatomical structure formation involved in morphogenesis 1239
        trabecula formation 30
          bone trabecula formation + 14
          heart trabecula formation 15
          liver trabecula formation 0
          spleen trabecula formation 1
Path 2
Term Annotations click to browse term
  biological_process 19497
    developmental process 6889
      anatomical structure development 6306
        multicellular organism development 5727
          system development 5373
            animal organ development 4130
              animal organ morphogenesis 1168
                trabecula formation 30
                  bone trabecula formation + 14
                  heart trabecula formation 15
                  liver trabecula formation 0
                  spleen trabecula formation 1
paths to the root