C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: collagen, type II, alpha 1
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSMUSG00000022483 Col2a1 10090 - 15:97975602-98004695 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENSMUST00000023123 Col2a1-001 97975602-98004695 protein_coding
  ENSMUST00000088355 Col2a1-002 97975602-98004657 protein_coding
  ENSMUST00000127879 Col2a1-004 97998371-98001887 processed_transcript
  ENSMUST00000128547 Col2a1-007 97988111-97990476 processed_transcript
  ENSMUST00000131560 Col2a1-009 97998578-98004635 protein_coding
  ENSMUST00000131910 Col2a1-008 97986309-97988921 retained_intron
  ENSMUST00000133488 Col2a1-005 97995019-97999693 processed_transcript
  ENSMUST00000139246 Col2a1-006 97994868-97999465 retained_intron
  ENSMUST00000140064 Col2a1-003 98000243-98004657 retained_intron

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaENSMUST00000023123ENSMUST00000088355ENSMUST00000128547ENSMUST00000131560ENSMUST00000131910ENSMUST00000133488ENSMUST00000139246
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta
ENSMUST00000023123 N/A N/A N/A 9.659±3.13 0.032±0.00 N/A 0.021±0.00 N/A 0.097±0.05 N/A 0.114±0.00 N/A 5.177±1.42
ENSMUST00000088355 0.010±0.01 0.015±0.01 0.010±0.00 N/A 0.017±0.01 0.015±0.00 0.114±0.11 0.019±0.00 0.077±0.00 0.106±0.09 0.112±0.03 0.029±0.01 0.711±0.85
ENSMUST00000128547 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 0.290±0.00 N/A N/A
ENSMUST00000131560 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 0.457±0.00
ENSMUST00000131910 0.050±0.00 0.260±0.00 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 0.083±0.00
ENSMUST00000133488 N/A N/A N/A N/A N/A 0.103±0.00 N/A N/A N/A 0.061±0.01 N/A N/A N/A
ENSMUST00000139246 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 0.310±0.00 N/A N/A

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_0005YL CIL_0005YL_0002 CGP 15:97964229-98004695
CIL_00079B CIL_00079B_0002 CGP 15:97975602-98093744

Gene Ontology
GO IDEvidence TypeGO Description
GO:0001501 IEA skeletal system development
GO:0001502 IMP cartilage condensation
GO:0001503 IEP ossification
GO:0001894 IMP tissue homeostasis
GO:0001958 IMP endochondral ossification
GO:0002062 IMP chondrocyte differentiation
GO:0003007 IMP heart morphogenesis
GO:0005201 IEA extracellular matrix structural constituent
GO:0005578 IDA proteinaceous extracellular matrix
GO:0005581 IDA collagen trimer
GO:0005585 IMP collagen type II trimer
GO:0005604 IDA basement membrane
GO:0005615 IDA extracellular space
GO:0005737 IDA cytoplasm
GO:0006029 IMP proteoglycan metabolic process
GO:0007417 IEP central nervous system development
GO:0007601 IEA visual perception
GO:0007605 IEA sensory perception of sound
GO:0010468 IMP regulation of gene expression
GO:0030199 IMP collagen fibril organization
GO:0030903 IEP notochord development
GO:0031012 IDA extracellular matrix
GO:0035108 IMP limb morphogenesis
GO:0042472 IMP inner ear morphogenesis
GO:0042802 IPI identical protein binding
GO:0046872 IEA metal ion binding
GO:0048407 IEA platelet-derived growth factor binding
GO:0048705 IMP skeletal system morphogenesis
GO:0048839 IMP inner ear development
GO:0051216 IMP cartilage development
GO:0060021 IMP palate development
GO:0060174 IEP limb bud formation
GO:0060272 IEA embryonic skeletal joint morphogenesis
GO:0060348 IMP bone development
GO:0060351 IMP cartilage development involved in endochondral bone morphogenesis
GO:0071599 IEP otic vesicle development
GO:0071773 IDA cellular response to BMP stimulus
GO:2001240 IMP negative regulation of extrinsic apoptotic signaling pathway in absence of ligand

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000011407 col2a1b collagen type II, alpha-1b protein_coding Danio_rerio
ENSDARG00000069093 col2a1a collagen type II, alpha-1a protein_coding Danio_rerio
ENSG00000139219 COL2A1 collagen, type II, alpha 1 protein_coding Homo_sapiens

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