XLOC_005080 (col1a1b)


Basic Information

Item Value
gene id XLOC_005080
gene name col1a1b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007123.7
NCBI id CM002896.2
chromosome length 49182954
location 3095699 ~ 3133483 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00009881
GCAGTAGGGAGTTTCTGCTAGGGTCTGGATTGGAGTTACACAGACCGGACCCTACGTGTATGAGTGAGGACAAAACAGGATTCCCCTAGCCTCAAAGAGTCTACATGTCTAATATTTAGACATGTTCAGCTTTGTGGATATCCGGTTAGGGCTGCTGCTCGCCGCAGTGGTCCTTGCAGTGAGAGGACAAGGAGAGGATGACATCTCATTCGGTAGCTGTACATTGGAGGGTCAGAATTACAACGACAAGGATGTATGGAAACCCGAGCCCTGCCAAATCTGCGTCTGCGACAGCGGGACGGTCATGTGCGACGAGGTGATCTGCGAGGATACATCAGACTGTGCCAATCCAGAGATTCCCGATGGAGAATGCTGCCCCATCTGCCCCGACGAAGAAGTTACTGCAGCTCCTGAGCCTCCATATGTTGATACCGTGGGTCCTGCTGGCCCAAGAGGAGACCCAGGTCCTGTTGGGCCTCCTGGCAGAGATGGTACTCCCGGAGAGAATGGACTCCCTGGCCCTCCTGGTCCTCCTGGGACCTCTGGCCTTGGCGGCGGATCTTTCCTTTCCCAGATGGCTTATGGCAGTGAGAAGTCCAGCGGTCCTCCTCAACCCGGACCACCAGGCCCCATGGGTCCCCGTGGCCCCCCAGGACCTGCAGGTTCACCTGGCCCTCAGGGATTCACTGGCCCCCCAGGCGAGCCTGGTGAGCCTGGTGCTCCTGGTCCAATGGGTTCTCGTGGTCCTCCCGGCCCTCCTGGAAAGAACGGAGAAGATGGTGAAGCTGGCAAAGCAGGCCGTCCCGGTGAGCGTGGAGCAGCTGGGCCTCAGGGTGCTCGTGGATTCCCAGGAACCCCTGGACTCCCTGGCATCAAGGGACACAGAGGATTCCCTGGTCTAGATGGAGCTAAGGGAGACGCTGGCATTGCTGGACCTAAGGGAGAAGCTGGTTCTCCTGGCGAGGCTGGAACTCCTGGAGCCATGGGTGCTCGTGGTTTGCCCGGTGAGAGAGGTCGTCCTGGTCCTCCCGGTCCTTCTGGTGCACGTGGTAATGATGGTAACACTGGCGCTGCCGGACCTCCCGGACCCACTGGCCCTGCTGGTCCTCCTGGTTTCCCTGGTGGTGCTGGTGCTAAGggAGAAACTGGTGCTGCTGGAGGTCGTGGTTCAGAGGGACCTCAGGGACCCCGTGGTGAGCCTGGTAACCCTGGACCTGCTGGTGCTGCCGGCCCTGCTGGAGGACCTGGTTCTGATGGCACTCCTGGTGGCAAAGGATCTCCTGGTGCTGCTGGTATTGCTGGTGCTCCTGGTTTCCCTGGTGCTCGTGGACCACCAGGACCCGCTGGACCTAATGGAGCTCCAGGCCCCAAAGGAAACAATGGAGATCCTGGTCTCCAAGGCCCTAAGGGAGATGCTGGTCCTAAGGGAGAGCCTGGTCCAGTTGGACCCCAAGGTCTCGCCGGAAACGCTGGTGAGGAAGGAAAGAGAGGAGCTCGTGGTGAGCCTGGTGCTGCTGGACCTGTCGGACCTCCTGGAGCCCGTGGTGCACCTGGCAACCGTGGTCTTCCTGGTAGTGATGGCGCACCTGGACCTTTGGGTGCCCCTGGCGAGCGTGGAGCCAACGGACCAATGGGAGCTCAAGGAGCCTCCGGAGAGTCTGGTCGCCCAGGAGAGCCAGGTCTGCCTGGATCTAAGGGTATGACTGGTGCCCCTGGAAGCCCTGGACCTGATGGCAAAGCTGGACCTTctGGTGCACCTGGACAAGATGGTCGCCCTGGACCCCCAGGACCTGCCGGATCTCGTGGTGCTCCTGGAGTTATGGGATTCCCTGGGCCCAAAGGAACCGATGGTGAGAGTGGTAAACCTGGTGAGAGAGGACTTGCTGGACCTACTGGCCCTCTGGGAGCTCCTGGTAAGGATGGTGATATCGGTAGTCCTGGTGCTCCTGGACCTGCTGGACCTGCTGGAGAGAAAGGAGAACAGGGATCTGCTGGTCCTTCTGGATTCCAGGGTCTTCCAGGTGCACAGGGTGCTACCGGTGAGACTGGCAAACCCGGTGAACAGGGTCTTCCTGGTGAAGCTGGTCCTTCTGGTCCTTCTGGTCCCAGAGGTGACCGAGGTTTCCCTGGTGAGCGTGGGGCCCCTGGACCTGGTGGCCCAACCGGCCCTCGTGGAGCCCCTGGATCCCCTGGTAATGATGGTGCAAAGGGAGAGCCTGGTGCCGCTGGAGCCAACGGTGGTGTCGGACCCGCAGGGATGCAGGGAATGCCCGGAGAGCGCGGTGCTGGAGGAATGCCCGGAGCCCGAGGAGACAGAGGTGATGGTGGTCCTAAGGGTCCTGATGGTGCTCCTGGCAAAGATGGCGTGCGTGGCATGACCGGCCCTATTGGACCTCCTGGACCCAGTGGTGCTCCTGGTGATAAGGGAGAGCCTGGTGCTGTTGGACCCCCAGGATTGACTGGACCTCGTGGAGGCCCTGGTGAGCGCGGTGAAGTCGGTGCTCCTGGACCTGCTGGTTTTGCTGGACCTCCTGGTGGCAATGGACAGCCTGGTGCTAAAGGAGAGACTGGAGACTCCGGACCCAAGGGTGACGCTGGAGCTCCTGGACCTGCTGGACCCGTTGGAGCTTCTGGACCACAGGGACCTGCTGGTGCTACTGGACCTAAAGGTGCTCGTGGTGGTGCTGGACCTCCTggTGCTACTGGTTTCCCTGGTGCTGCTGGTAGAGTCGGACCTCCAGGCCCCTCAGGTGCTTCTGGACCGCCTGGACCTACTGGTCCTGCTGGTAAAGAGGGACAAAGAGGAGCCCGTGGTGAGAAGGGACCCGCTGGCCGTCCTGGAGAGGCTGGAGCTGCTGGACCCCCAGGACCCTCCGGAGAGAGGGGTAGCCCTGGTCCCGATGGTCCTCTTGGTCTCGCTGGAGCTCCTGGACCCCCTGGTGTTATTGGATCTCGTGGTATTGTTGGTCTTCCTGGACAGAGAGGAGAGAGAGGTTTCGGCGGCTTGGCAGGTCCTTCTGGAGAGCCAGGAAAGCAGGGACCCTCTGGGCCTGTTGGTGAACGTGGACCCCCTGGACCAATGGGACCCCCTGGACTGAGTGGAGCCCCTGGTGAGGCTGGACGTGAGGGTAACCCTGGACATGATGGTGTTTCTGGCCGCGATGGTCCTCCTGGACCAAAGGGAGACCGTGGTGAGTCTGGAAACAGTGGTCCTCCTGGTGCCCCTGGTGCTCCCGGAGCCCCTGGTCCTATTGGTCCATCTGGAAAGACTGGAGATCGTGGAGAGGCTGGTCCTGCTGGTCCTGCTGGTCCTTCTGGTCCTGCTGGTGCTCGTGGAGCCCTGGGTCCCGCTGGTCCTCGTGGAGACAGAGGTGAGGCTGGAGAGGCTGGAGAGAGAGGCATGAAGGGACACCGCGGTCTCTCTGGCATGCCTGGAGTTCCTGGACCTCCTGGAACTTCCGGTGAACAAGGACCCGCCGGAGCCACTGGCCCTGCCGGACCTCGTGGACCAGCCGGCTCCAATGGCTCTCCTGGTAAGGATGGTATGAATGGCGTGCCTGGACCTGTTGGACCTCCTGGACCACGTGGTCGCTCTGGAGAAATGGGACCTGCTGGTGCTCCTGGTCTTCCTGGACCCCCAGGCCCTCCAGGATCAGCCGGTCCCGGTGAGCCCTTCCTGCCCATGCCACAGCAGGAGAAGGGTCCCGATCCTCTCCGTGGAGGCTACAGAGCCGATGACGCCAGCGTTCGTGACCGCGACTCTGAGGTCGACACCAGTCTTAAATCTCTGAGCCAGAAGATCGAGAACATCCGCAGCCCCGAAGGAACCCAGGCCAACCCCGCCCGCATGTGCCGCGACCTCAGGATGTGCCACCCAGAATGGAAGAGCGGTTCCTACTGGGTGGATCCCAACCAGGGCTCTCCTCTGGACGCCATCAAGGTCTTCTGCAACATGGAGACTGGCGAGACCTGCGTCAGCCCCTATCACTCCGACATTCCCAGGAAGAACTGGTACACCAGCAAGAACATCAGAGAGAAGAAGCACGTCTGGTTCGGAGAGTCCATGCCCAACGGCTTCCAGttCCAGTATGGTAGCGATGGCTCTGATCCAGAGGATGTGAACATCCAGCTGACCTTCATGCGCCTGATGTCCAACCAAGGCTCCCAGAACATCACCTACCACTGCAAGAACAGCATCGCCTACATGGACGAGACCTCAGGCAACCTGAAGAAGGCTCTGCTCCTGCAGGGCTCCAACGACATCGAGATCAGAGCGGAGGGCAACAGCCGCTTCACATACAGAGTCAGCGAGGACGGCTGCACGTCACACACTGGCACATGGGGCAAGACAGTCATTGACTATAAGACAACGAAAACATCTCGTCTGCCAATCATTGATATCGCTCCTATGGACATTGGTGCTCCCGATCAGGAATTCGGCGTAGAAGTTGGCCCAGTCTGCTTCTTGTAATAAGAAAAATCTGGacattgctgttttttttctagcAGTCATCTTCAAATCTTTTCCTGTTcacgacaaaataaaaatgatgataataataacaatagtaaagcCCGAACTCTTATTCGGCTGCAATCGGTCCATGTGCTTAAACCAGAATCCCTGAGGACGGTGCTATGCTGTGATTCTCATCTCAAAACAACAAAACTGAGGACCACGACATCATTATCATGGACACTTAGCGAGAATCCTTTGCGTCaacaagaaaataatatataatataaacgcCCCGAGGCCCCCCAGGAGTCCAAAGAAAAACTTGGAGACTTTCTTTGCCGTTTTTTTGACCACTGCGAAAGGACAATGAAAAACAAGCAAATGCTAATGTACCATTCTCTGGTGTTGAATAAATATGACAAACGACAGCCGAGTGTCTTTGTTCCTTCAAAACATCACACAGATAGTCAATGGTACGACGTCATCTTGATATAAGGCTACCtcaggacaaaaaaaaagtgcGTTTTTGGGCGGGAAACGAGGGCTGTGTTTTCATCCAAGCGATTGATAACATATAAAAAGGTGCTACTTACTTTCAAGGGTCCTGTCAgtggtttgtttgtgtttgatgGGAAAGAACAAGCCTTTTTATACTGTCGTTTACCCTTTCGGGACCTTTTTTTGGTGCTAAATGTCGACAGAATGTCTTGATGTCAATGTGATTGCTCAAAGTGTCAGCAGAAGAGGATTAAACAGCAGTTTAGGGTTGGTTACTGTCGATTTGCACTTAATCTTGTGTGGGTTAAGTGGATGGATTGATTGCCAGTTCGTCTAACGTCCAATTCCCCTTCTTAGAGACGCCTTTATGTACATGCCGCAGCTCCCCCTTGTGTCCAGATTTAATTACTGCTTCCCGAATGCAATGCACATCTCTTTTCTATTCTgagtttgtttgatttgttttcagCGAAAGGTTTCTTATAAAAACTGAAATGAGGCGGCCAAAACTTAAAGAAAAAGGGAAAATGCAGAAGAGATAGACCCTCCCATTGGTTCCATCAAAGGATCTGTACTTATTTTGTACATGTATAGTATTTCgagatgtttttaattattttggatGTTGAAATAAAGCATGTTTATGTGGTCAA

Function

symbol description
col1a1b Predicted to be an extracellular matrix structural constituent. Acts upstream of or within skeletal system development. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in cytoplasm; extracellular matrix; and extracellular space. Is expressed in several structures, including integument; myoseptum; osteoblast; tendon; and trunk. Used to study osteogenesis imperfecta. Human ortholog(s) of this gene implicated in several diseases, including Ehlers-Danlos syndrome arthrochalasia type 1; aggressive periodontitis; bone disease (multiple); cutaneous leishmaniasis; and dentinogenesis imperfecta. Orthologous to human COL1A1 (collagen type I alpha 1 chain).

GO:

id name namespace
GO:0001501 skeletal system development biological_process
GO:0030198 extracellular matrix organization biological_process
GO:0031012 extracellular matrix cellular_component
GO:0005581 collagen trimer cellular_component
GO:0005615 extracellular space cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-4400 Predicted to be an extracellular matrix structural constituent. Acts upstream of or within skeletal system development. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in cytoplasm; extracellular matrix; and extracellular space. Is expressed in several structures, including integument; myoseptum; osteoblast; tendon; and trunk. Used to study osteogenesis imperfecta. Human ortholog(s) of this gene implicated in several diseases, including Ehlers-Danlos syndrome arthrochalasia type 1; aggressive periodontitis; bone disease (multiple); cutaneous leishmaniasis; and dentinogenesis imperfecta. Orthologous to human COL1A1 (collagen type I alpha 1 chain).

Ensembl:

ensembl_id ENSDARG00000035809

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00009881 True 5610 mRNA 0.56 51 3095699 3133483

Neighbor

gene id symbol gene type direction distance location
XLOC_005079 rfng coding downstream 18304 3054442 ~ 3077395 (-)
XLOC_005078 dcxr coding downstream 41817 3043308 ~ 3053882 (-)
XLOC_005077 si:dkey-202c14.3 coding downstream 102604 2951186 ~ 2993095 (-)
XLOC_005076 fam20a coding downstream 155629 2906610 ~ 2940070 (-)
XLOC_005075 zdhhc16b coding downstream 226115 2849584 ~ 2869584 (-)
XLOC_005081 si:ch1073-13h15.3 coding upstream 86802 3220285 ~ 3237561 (-)
XLOC_005082 gngt2b coding upstream 115571 3249054 ~ 3252263 (-)
XLOC_005083 NA coding upstream 148273 3281756 ~ 3284909 (-)
XLOC_005084 lsm12b coding upstream 154300 3287783 ~ 3299149 (-)
XLOC_005085 TANC2 coding upstream 181021 3314504 ~ 3453589 (-)
XLOC_005073 NA non-coding downstream 351058 2703355 ~ 2744641 (-)
XLOC_005072 NA non-coding downstream 426199 2625669 ~ 2669500 (-)
XLOC_005071 CU929359.1 non-coding downstream 478189 2579237 ~ 2617510 (-)
XLOC_005069 NA non-coding downstream 615768 2067963 ~ 2479931 (-)
XLOC_005068 NA non-coding downstream 1093875 2000636 ~ 2001824 (-)
XLOC_005086 NA non-coding upstream 385685 3519168 ~ 3544016 (-)
XLOC_005087 NA non-coding upstream 436264 3569747 ~ 3570081 (-)
XLOC_005092 NA non-coding upstream 649138 3782621 ~ 3786382 (-)
XLOC_005094 NA non-coding upstream 726981 3860464 ~ 3865234 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000047_04479638_04501854 NA coding CI01000047 null 4479241 ~ 4501973 (-)