XLOC_003772 (col2a1b)


Basic Information

Item Value
gene id XLOC_003772
gene name col2a1b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 32007 ~ 56763 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00007274
GGAAGTCCGGGCCCTCGGGGACGAGATGGAGAGCCGGGAACCCCAGGAAACCCTGGACCTCCAGGACCTCCAGGACCCAACGGACCACCAGGCCTTGGCGGAGTGAGTATCTGTCAgttaacacacacacacacacacacacacacatgctgctcATGTAAATATTGTTGCTGGCCTGTGATTGGACGCTCAGACTGTGATGTGATTGGTGTGTGTGTTCTTCAGGGTCCTGAAGGATTCCAAGGAAACCCAGGAGAAGGCGGAGAGCCGGGATCATCCGGCCCAATGGGTCCCCGTGGCCCACCCGGACCCCCAGGGAAACCAGGAGATGATGGTGAGCCGGGCAAACCTGGCAACGGTGGAGAGCGTGGACCCCCAGGCCCTCAGGGAGCTCGTGGATTCCCAGGAACACCCGGACTACCTGGAATCAAGGGACACAGAggttaCACAGGTCTTGATGGTGCTAAAGGAGAGTCTGGAGCTACTGGAGCAAAAggTGAATCCGGCTCTCCTGGAGAAAGTGGAGCTCCTGGACCGATGggtCCGCGAGGTCTGCCTGGTGAACGGGGGCGTCCAGGACCGTCAGGAGCTTCTggTGCTCGTGGTAATGACGGTCTGCCTGGCGGTGCTGGTCCACCGggtccCGTTGGTACAGCAGGATCTCCCGGGTTCCCAGGATCCCCCGGTGCAAAGGGTGAAGCGGGACCAACCGGAGCCCGAGGGCCTGAGGGAGCACAGGGGCCCCGTGGAGAGTCTGGTGTTCCTGGAGCCTCGGGACCCTCTGGAGTCTCTGGTAACCCTGGTTCTGACGGGATGCCTGGAGCCAAAGGATCAGTGGGCGCTCCGGGTATCGGTGGAGCTCCTGGTTTCCCGGGTCCGCGTGGTCCTCCAGGCCCTCAGGGAGCGACAGGTCCTCTAGGGCCAAAGGGTCAATCTGGGGACTCGGGCCTCGCAGGGTTCAAAGGTGAAGCCGGTCCTAAAGGAGAGATTGGAAATGCTGGTCTACAAGGGGCTCCAGGTCCTGCTGGAGAAGAAGGCAAGCGAGGACCCAGAGGAGAGCCTGGTGCTGCGGGCCCCCCAGGGCCAACTGGAGAACGGGGAACGCCTGGTAATCGAGGTTTTCCCGGACAAGACGGTCTTGCTGGTCCAAAGGGTGCGCCCGGAGAGCGTGGACCTGCAGGCGTATCGGGACCTAAAGGAGCCGGTGGAGATCCAGGGCGGCCGGGAGAACCAGGTCTACCTGGTGCAAGGGGTTTGACGGGACGTCCAGGAGACGCCGGTCCACAGGGCAAAGTCGGTCCGTCTGGCGCTCCGGGTGAAGACGGTCGTCCGGGACCCCCGGGGCCTCAGGGTGTTCGCGGTCAGCCAGGAGTCATGGGATTCCCGGGACCCAAGGGTGGAAATGGTGAGGCTGGAAAGGCTGGAGAGAAGGGACTCGCTGGAGCTCCGGGTCTGCGTGGTCTGCCTGGTAAAGATGGAGAGACCGGTGCTGCTGGGCCTCCAGGACCTGCCGGCTCTGCGGGAGAGCGAGGCGAGCAGGGACAGCCGGGACCATCAGGCTTCCAGGGTCTGCCTGGACCCCCGGGGCCCCCCGGTGAGGGAGGTAAACCTGGAGATCAGGGAGTTCCTGGAGAGGCCGGAGGGGCAGGGGCTACCGGACCCCGAGGTGAGCGAGGGTTCCCAGGAGAGAGAGGCGGTGCTGGGCCACAGGGGCTCCAGGGGCCCCGGGGTCTACCAGGAACACCAGGAACCGACGGCCCCAAGGGTGGTGTGGGACCCGCGGGGACAGCTGGAGCTCAGGGTCCTCCAGGACTGCAGGGAATGCCCGGAGAGAGAGGCACGTCTGGGAATCCAGGACCAAAGGGCGACCGAggcGATAATGGAGATAAGGGACCAGAAGGAGCTCCGGGTAAAGACGGCTCAAGAGGTTTAACGGGTCCAATTGGTCCAACAGGTCCTGCGGGACCCAACGGTGAAAAGGGAGAATCGGGACCCGCGGGACCGTCTGGAGTTGCGGGGACTCGCGGTGTTCCTGGTGACCGAGGAGAGACTGGCCCTCCTGGTcctgctggttttgctggtccaCCAGGTGCAGATGGACAGCCGGGAGTGAAAGGAGAGCAGGGTGAAGGTGGACAGAAGGGTGATGCTGGAGCCCCGGGCCCTCAGGGGCCCTCTGGAGCTCCGGGCCCGCAGGGACCAACCGGTGTGTCTGGACCAAAAGGGGCTCGTGGTGCTCAAGGCCCTCCTgGTGCCACGGGTTTCCCCGGAGCCGCTGGAAGAGTTGGACCTCCTGGTCCTAATGGTAACCCTGGTCCAGCCGGTCCTGCTGGTCCTCCTGGTAAAGATGGGCCAAAGGGTGTCAGAGGAGACGGTGGTCCTCCTGGAAGACCTGGAGACGCTGGTTTACGGGGTTCGGCTGGTCCTGCAGGAGAGAAGGGAGATCCTGGTGAAGACGGTCCTCACGGTCCGGACGGTCCCGCAGGTCCCCAGGGTCTGGCCGGTCAGCGCGGTATCGTTGGTCTTCCAGGACAAAGAGGCGAAAGAGGATTCCCCGGCCTGCCTGGACCCTCCGGTGAGCCGGGTAAGCAGGGGGCTCCTGGGGGACCCGGGGACAGAGGACCTCCTGGCCCTGTAGGGGCACCAGGTCTGACCGGCGCTGCAGGAGAGCCGGGGAGAGAGGGCAATCCTGGATCTGATGGTCCTCCTGGTCGAGATGGTTCTGCTGGAATAAAGGGAGACCGAGGTGACACGGGTCCAGCTGGAGCTCCTGGTGCTCCAGGGGGTCCTGGTGCTCCTGGTCCAGTCGGACCCACTGGTAAACAGGGAGACAGAGGAGAGGCGGGTCCCCATGGGCCTTCTGGACCTCCAGGGCCTGCTGGAGCTCGGGGAATGCCTGGACCACAAGGACCGCGTGGAGATAAAGGAGAAGCTGGGGATTCGGGAGATAGAGGACAGAAAGGACACAGAGGCTTCACTGGTCTCCAAGGTCTGCCTGGGTCTCCTGGTCAACCTGGTGATCAAGGTGCTTCTGGACCCTCTGGACCTGGTGGAGCAAGAGGACCCCCAGGCCCTGTCGGTCCAGCTGGAAAAGATGGAGCAAACGGTTTACCTGGACCCATTGGACCCCCGGGACCCCGTGGTCGTTCTGGGGAGACTGGTCCATCaGGTCCTCCTGGAACTCCTGGACCCCCTGGTCCTCCTGGCCCTCCGGGACCTGGCATCGACATGTCAGCCTTTGCTGGTCTGTCTCAGCTTGAGAAGTCTCCTGATCCCCTGAGGTACATGAGGGCAGACCAGGCCGCAGATGGTAACCATCAGCATGATGCAGAGGTGGATGCCACGCTCAAATCCCTGAACAACCAGATGGAGAACATCCGCAGGCCTGATGGCACCAAAAAGAGCCCGGCCCGGACCTGCAGAGACCTGAAGCAGTGCCACCCAGACTGGAAGAGCGGCGAATACTGGATTGACCCGAACCAGGGCTGCACCGTCGATGCTATCAAAGTGTTCTGCAACATGGAGACCGGCGAGAGCTGCATTTACCCCAAACCTGCCAACATCCCACGCAAGAACTGGTGGACTACGAAGGGTGGGGATCGCAAACACATTTGGTTTGGGGAAGCCATGAATGGAGGATTCCACTTTAACTATGGAGACGAGAATCTGTCGCCAAATACAGCCAGTATTCAGATGACCTTCCTCAGACTGCTGTCCACTGAAGCCTCGCAGAACCTTACCTACCACTGCAGGAACAGCATCGCCTACATGGACGAATCCTCTGGGAACCTGAAGAAGGCTCTGCTGCTGCGCGGATCCAATGATGTGGAGATCCGGGCGGAAGGAAACAGCCGCTTCACCTACAGCGTTCTGGAGGACGGATGCAAGAAACACACAGGACAGTGGAGCAAGACCGTCATTGAGTATAAATCCCAGAAGACGTCTCGCCTGCCCCTTGTGGACATTGCCCCTGTGGATATAGGAGGAGCACATCAGGAGTTCGGAGTGGATGTAGGAGCCGTCTGTTTCTTATAAGACAGAAGGACGGATTAAACACACACTTGAGAGTGAGGAGTAAAGAAAGAGAGAAACTAAAGAACTAGACATTTTAAGCGGGACATCTTTATGATAGACAACAGAAGTGCTTCCGAACGTATTTTTAGGATATGCACTGATAGGCAGTGTCAGTCTTCACCTGTGACTGTGCTGTCACTCATTCCCACCTCCACCCTCCGGGACCACCTCCATCTACAGCAGAACGGTGTATGAGGGAGAAACCAGAGCAAAGACAGAAGCAGAAGAGTCttcgtatttatttattgttaaggTGCTATTCCCCTGTCATTAGGATCATCAGCGACAGTCCCCGTATTAAGCATTCAACTCCCACAGACTTTACACCACCCTGAGCCTTCATATGCGAGTGCTGGTGTTTCTCACGGCCACAGTCTGTGTACATCACTGCGCATTCAAGCATAATCAGCGGTGCTAATCTTTCAGAATGCCTTGCAGATTTTTACAACAGCCTGATATATAATAGACATctaattgtttgtttgtatatatgtgtgtgtgtgtgtgtgtgtgtgtgcgcgcattacAGTTAGCTTTTCATTCTACAGTCCCCTAACCCCTATTAAGGCAGCCTGTTTAGTGTACTTTATTAGAGACCCTTCATGTAGTGGATTTACATTTGAAGCTACCTCATGCTGGACAAAACAATCACAGAGAGAGCAGTCTTTACTAGAGCCTCGAATCAGGACAAAGCCAGACTGTGCGCTGGTCACAATCAAGTAAGATCAATGAGATGTCATTGCGTCTGCCCCATTCATGCCTCTTTCTGAAATCGCCGTTTGCTAATGCTAGCTCAGTCGGTCTCATCCTGTAGACTGAAAACAGATGCATGTGATAGTGGAAAAGCTAAGCACTGTTGTAGTATTGTGTTCATTTTGCTGTTGTAGTTTTCCTGAATGCCAATGTTTAAAGTTGTACACTAGAGATGCTGTTTATCCTCTCTCTTTGGTTTTGGATGCACTCTTAGATGTAGGGGAAGAGCCGTGTAGTCGAGCGCATCAGCTCTCCTGCCATCAGTGTGTGTGCGGTGTTTGCTTCatcttttgttgtgtttgttttctaaaataaaaggATGCTGCATCTC
>TCONS_00008720
CAGTCGCCTGTGTTAGCTCTGCTGTAATGGGACGCAGCCGCTGCAGGAGCCGGGGAACACTATAGAGCTGAGCTGCAGACGTGTTTGACATGAGGTGTGATGTGGGGGTGCCGGGTGTTGATGAGGGCTGTGGTTATAACCTGTCTGAACACGGCTGATGGTTTCTTCAGCTCATTACTCTCGGCTGCTGCTCGTCTTCATGCTCAAACGCTGTTAAATGTTTAATTGTGTGGAGGAATCTGAGCTCTCTCGCCGACAGATTAAAGCTCTCTCTGACGGATCcgtgtgcttgtgtttgttcTGCAGGGTCCGATGGGCCCCCGAGGACCCCCAGGCCCCAACGGAGCTCCGGGTCCTGAAGGATTCCAAGGAAACCCAGGAGAAGGCGGAGAGCCGGGATCATCCGTATGTCTGAGCGAG
>TCONS_00008721
TGTGTATGTAGTTATCACTTGTGTGTGTATAGTTCTGAACTTGTTTGTGTgcagttatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgagtgtgtgtgcagatATCATTTATAAGTGTGGTTATCTTGTGTATGtagttattgtgtgtgtgtgacagtgtgtgtgagtgtgtgtgtgtgctcagtcgTGAACTCTgacgcagtgtgtgtgtgtgtgtgtgtgtgttctcctcaGGTTGTGGGGCCGCGGGGACCGTCCGGGCCGATGGGTCCGATGGGCCCCCGAGGACCCCCAGGCCCCAACGGAGCTCCGGGTCCTGAAGGATTCCAAGGAAACCCAGGAGAAGGCGGAGAGCCGGGATCATCCGTATGTCTGAGCGAG

Function

symbol description
col2a1b Predicted to be an extracellular matrix structural constituent. Acts upstream of or within fin morphogenesis. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in extracellular matrix and extracellular space. Is expressed in several structures, including axis; central nervous system; fin; head; and notochord. Human ortholog(s) of this gene implicated in Stickler syndrome (multiple); bone disease (multiple); cleft palate; eye disease (multiple); and multiple epiphyseal dysplasia with myopia and deafness. Orthologous to human COL2A1 (collagen type II alpha 1 chain).

GO:

id name namespace
GO:0001501 skeletal system development biological_process
GO:0030198 extracellular matrix organization biological_process
GO:0030199 collagen fibril organization biological_process
GO:0033333 fin development biological_process
GO:0033334 fin morphogenesis biological_process
GO:0030903 notochord development biological_process
GO:0031012 extracellular matrix cellular_component
GO:0005581 collagen trimer cellular_component
GO:0005615 extracellular space cellular_component
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-050302-9 Predicted to be an extracellular matrix structural constituent. Acts upstream of or within fin morphogenesis. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in extracellular matrix and extracellular space. Is expressed in several structures, including axis; central nervous system; fin; head; and notochord. Human ortholog(s) of this gene implicated in Stickler syndrome (multiple); bone disease (multiple); cleft palate; eye disease (multiple); and multiple epiphyseal dysplasia with myopia and deafness. Orthologous to human COL2A1 (collagen type II alpha 1 chain).

Ensembl:

ensembl_id ENSDARG00000011407

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00007274 False 5158 mRNA 0.58 46 32007 55224
TCONS_00008720 False 420 lncRNA 0.56 2 52872 53556
TCONS_00008721 True 380 lncRNA 0.53 3 52872 56763

Neighbor

gene id symbol gene type direction distance location
XLOC_003771 sp1 coding downstream 3260 19668 ~ 28747 (-)
XLOC_003770 prr13 coding downstream 13558 13179 ~ 18449 (-)
XLOC_003769 MYG1 coding downstream 19660 6899 ~ 12347 (-)
XLOC_003773 CABZ01072245.1 coding upstream 4427 61190 ~ 71540 (-)
XLOC_003774 elmo2 coding upstream 31484 88247 ~ 103157 (-)
XLOC_003775 arfgap1 coding upstream 65871 122634 ~ 127785 (-)
XLOC_003776 NA coding upstream 71395 128158 ~ 129166 (-)
XLOC_003777 cdk4 coding upstream 78486 135249 ~ 141592 (-)
XLOC_003938 BX324177.10 misc upstream 11282041 11338804 ~ 11339100 (-)
XLOC_003942 BX324177.17 misc upstream 11310831 11367594 ~ 11367890 (-)
XLOC_003943 BX324177.3 misc upstream 11313692 11370455 ~ 11370653 (-)
XLOC_003944 BX324177.4 misc upstream 11324141 11380904 ~ 11381204 (-)
XLOC_003945 BX324177.6 misc upstream 11327070 11383833 ~ 11384130 (-)
XLOC_003780 CU633745.1 non-coding upstream 126807 183570 ~ 190461 (-)
XLOC_003781 NA non-coding upstream 136697 193460 ~ 194715 (-)
XLOC_003787 CR855375.2 non-coding upstream 292350 349113 ~ 351701 (-)

Expression


Co-expression Network