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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Transcript Info
Description: collagen, type II, alpha 1
Transcript Accession Transcript Name Contained in Gene Tax ID Strand Position Biotype
ENSMUST00000023123 Col2a1-001 ENSMUSG00000022483 10090 - 15:97975602-98004695 protein_coding

Mus musculus EnsemblGRCm38

Genome
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Genes
Structures from Ensembl
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Transcripts
Structures from Ensembl
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Expression Patterns

Heat Map
Numeric Values
Transcript'; BrainBreastHeartLiverMusclePlacentaENSMUST00000023123
Transcript ID Brain Breast Heart Liver Muscle Placenta
ENSMUST00000023123 9.659±3.13 0.032±0.00 0.021±0.00 0.097±0.05 0.114±0.00 5.177±1.42

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 Biotype Species E-Value Bit Score
ENSDART00000100234 col2a1a-001 protein_coding Danio_rerio 0 2228
ENSDART00000047844 col2a1b-201 protein_coding Danio_rerio 0 1386
ENSDART00000015092 col1a1b-001 protein_coding Danio_rerio 0 939
ENST00000337299 COL2A1-008 protein_coding Homo_sapiens 0 5212
ENST00000380518 COL2A1-001 protein_coding Homo_sapiens 0 6263
ENST00000483376 COL2A1-006 retained_intron Homo_sapiens 0 627
ENST00000493991 COL2A1-007 processed_transcript Homo_sapiens 0 2837
ENST00000546974 COL2A1-009 retained_intron Homo_sapiens 0 846

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