G338841 (col1a1,col1a1a,LOC107585052,LOC107740634,LOC108279263)


Basic Information

Item Value
gene id G338841
gene name col1a1,col1a1a,LOC107585052,LOC107740634,LOC108279263
gene type misc
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NW_019172936.1
NCBI id APWO02000145.1
chromosome length 1987809
location 1878449 ~ 1955333 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>TU466298
ACAAGGGGAAAAggGGCACTGCCATTGAAGTAACCATTGAACAACACGAGGGGGACTTGGTAAAGAAACCAAAAAAGACAACAACCAAAAAGTGTCAAAACTCAAATCTGTTGGGGTGAAAGACTCCACCTGCTTATTGCTACACTTGAAAAGACTATGTGCATTAAAGCTGCGTTGCTATAAAGCCCTGCTGCAAAAAAATGCAGCAAAAACACATTAGCAAGAGAGGCATTTGTTACAACTGGGCAGCAAGATCATttgttttttgcctttttttagcACCAAAGGCCCTGTGAGCAAGAGTGACAAACAATACATTactttttcaattaaaaaagcacAACTCTAACACACCCACTTACAGGACCTCATGATATAGCACCTTTTGCAGCTGTTACTTGCTTCTTTTAAACAATACTTCCGCAATGTAAAATCCTAACCTGGTGTTGGTCAACACTGGGTAATAACGTTGGTTTCTTTTCTGAGGTAGCCATAAGATATCACAACAAAGTCAAACCCCTGTCTCTTATTAGTTCTGTTCTTTCTGCGATGCTCGAAAGGAACAATGATGCTTCGTGCCTGCTGGACACTTGTTCTGATGGGTAGAACACAAAGACACTTAAATATCATTTTACAGATTTATTCATCACCTGAACATGGTACAAAGCATTTGGTTCTTGTTTTCATTGTCCTTCCGCAGtggtaaaaaaaagtcaccTGTATCTGTATTCAGTTTTTTAGCTCCAGGGGGATTTTACGCTTTAcaagtatatattattttcttgtTGCCAGTGAAACAAATGTCTCCTCGGTGTTGGTGGTGGTAAAATAGTGGTCCCAAAAAAAAGCTTGATAACACACAACCACTGTCTTCTTAAGCACAGTTCTAAGCAAGTGGACCATTCGGACAGCCAAATCGGACTCtagggctttttttttaattgcatagAAAAGATTTTAGAGAGATGACTgctagaaaaaacacacacacatcacacaaacAATTTCAAGtccagatttctttttttacaagaaGCAGACTGGGCCAACTTCAATGCCAAATTCCTGATTGGGTGCACCAACGTCCATAGGAGCGATGTCAATAATAGGCAGCCGAGATGTTTTCGTTGTTTTGTAGTCGATGACTGTCTTGCCCCATGCACCAGTGTGTGACTGCAAgaattgaaaaaagaaaaagtacaaTT
>TU466303
CATGACTATATAAGAGCTCTTATATTACGCACCGTGCAACCATCCTCAGTGACGCTGTATGTGAAGCGGCTGTTGCCCTCTGCTCTGATCTCGATCTCATTGGATCCCTGGAGCAGCAGAGCCTTCTTAAGATTGCCAGAGGCCTGGTCCATGTAGGCAATGCTGTTCTTGCAGTGGTATGTGATGTTCTGGGAGGCCTCAGTGGACATGAGACGCAGGAAGGTGAGCTGGATGTTGACATCCTCGGGCTTGGATTCCTCACCACCATATTCGAACTGGAAGCCATCGGTCATGGCCTCTCCGAACCAGACGTGCTTCTTCTCCTTGATGTTCTTGCTTGTGTACCAGTTCTTCTGAGGAATGTCGGACTGTGATGGGTAGACGCAGGTCTCGCCGGTCTCCATGTTACAGTAGACCTTGATGGCATCCTGGTTGCAGCCCTGGTCAGGGTCAATCCAGTGTCAGGGTGGCACATCTTCAGGTCGCGGCAGGTGCGGGCGGGGTTCTTCTTGGTGCCATCAGGGCTGCGGATGCTCTCAATCTGCTGGCTCAGGGACTTGAGGGTGGTGTCAACCTCCAGGTCACGGTCGCGCATCACATTGGCGTCATCAGCACGGAAGTGACGGAAGGGATCGGGTGCCTTCTCCTGTGGCTGGGCAATGAAGCCAATGTCGAATCCACCACCAGAGGGTCCAGGAGGTCCAGGGGGTCCGGGAGGTCCAGGAGGTCCCTAAAACAAAGGATGATGGAAGTAGGGGTGTAAAGTAGGTGCCTGATATATGGTCtgaacactttaaaatgagaagaagaaagagtATCTCACAGCAGGTCCAATTTCACCACTGCGACCGCGAGGTCCAGGGGGTCCAATGGGTCCAGGAAGTCCACTCATGCCATCCTTACCAGGGGTACCAGCAGATCCAGAAGGTCCCTATTGTTGTACAGAAGGAAACAATGACTTTATCTTCACTCAGCTTCAGGCAAGTGTCTCCTGGTATTGATATTGGTGCCAATTTATTATCCATGAAAAGgaatagaagaagaaagagaaatactTACTCTAGGTCCAGCAGGGCCAGATGATCCAGCGGGTCCAGACTCTCCAGAAGGTCCAGCCAGTCCAGGGGGTCCCATGGGTCCAGGAGGTCCACGCTCGCCACCGGGTCCACCAGGTCCCTGCTTGCCAGGCTCTCCCTAGTAGAGGAAAGAGGTTGGTTGGAT
>TU466304
AGCCATTTCTGATACTTTCTTTAATCTTCCTTTTTTAGTCCAAACAACTGTAACAGGTGCAAGTTGTGCTTCATTCAAGTCCATTGGGCAATCAGGGATGAGTCAAGATCACTTCTGACAAACATAAGGTCGACCACTTAACATGCTTTATTTCAGcattcaaaataattaaaaacatctcaaattattatacatatacaaaatagGTACAGATCCTCTTGTTTTAACCCCCCTATTGTGTGTCTGCTTTCTCACTAGTGTTTAGTTGTTGGAATTCTCTATTTCTCTTGCTATTCTCTTTGGAAAACCTTAAAAACCCttgtcaaaaaaacaaaacaaaaacaacaaattccaagaaaaggagaaaagggGGCACTGCCATTGAAGTAACCATTGAACAACACGAGGGGGACTTGGTAAAGAAACCAAAAAAGACAACAACCAAAAAGTGTCAAAACTCAAATCTGTTGGGGTGAAAGACTCCACCTGCTTATTGCTACACTTGAAAAGACTATGTGCATTAAAGCTGCGTTGCTATAAAGCCCTGCTGCAAAAAAATGCAGCAAAAACACATTAGCAAGAGAGGCATTTGTTACAACTGGGCAGCAAGATCATttgttttttgcctttttttagcACCAAAGGCCCTGTGAGCAAGAGTGACAAACAATACATTactttttcaattaaaaaagcacAACTCTAACACACCCACTTACAGGACCTCATGATATAGCACCTTTTGCAGCTGTTACTTGCTTCTTTTAAACAATACTTCCGCAATGTAAAATCCTAACCTGGTGTTGGTCAACACTGGGTAATAACGTTGGTTTCTTTTCTGAGGTAGCCATAAGATATCACAACAAAGTCAAACCCCTGTCTCTTATTAGTTCTGTTCTTTCTGCGATGCTCGAAAGGAACAATGATGCTTCGTGCCTGCTGGACACTTGTTCTGATGGGTAGAACACAAAGACACTTAAATATCATTTTACAGATTTATTCATCACCTGAACATGGTACAAAGCATTTGGTTCTTGTTTTCATTGTCCTTCCGCAGtggtaaaaaaaagtcaccTGTATCTGTATTCAGTTTTTTAGCTCCAGGGGGATTTTACGCTTTAcaagtatatattattttcttgtTGCCAGTGAAACAAATGTCTCCTCGGTGTTGGTGGTGGTAAAATAGTGGTCCCAAAAAAAAGCTTGATAACACACAACCACTGTCTTCTTAAGCACAGTTCTAAGCAAGTGGACCATTCGGACAGCCAAATCGGACTCtagggctttttttttaattgcatagAAAAGATTTTAGAGAGATGACTgctagaaaaaacacacacacatcacacaaacAATTTCAAGtccagatttctttttttacaagaaGCAGACTGGGCCAACTTCAATGCCAAATTCCTGATTGGGTGCACCAACGTCCATAGGAGCGATGTCAATAATAGGCAGCCGAGATGTTTTCGTTGTTTTGTAGTCGATGACTGTCTTGCCCCATGCACCAGTGTGTGACTGCAACCATCCTCAGTGACGCTGTATGTGAAGCGGCTGTTGCCCTCTGCTCTGATCTCGATCTCATTGGATCCCTGGAGCAGCAGAGCCTTCTTAAGATTGCCAGAGGCCTGGTCCATGTAGGCAATGCTGTTCTTGCAGTGGTATGTGATGTTCTGGGAGGCCTCAGTGGACATGAGACGCAGGAAGGTGAGCTGGATGTTGACATCCTCGGGCTTGGATTCCTCACCACCATATTCGAACTGGAATGTCGGACTGTGATGGGTAGACGCAGGTCTCGCCGGTCTCCATGTTACAGTAGACCTTGATGGCATCCTGGTTGCAGCCCTGGTCAGGGTCAATCCAGTACTCTCCTCTTCCAGTCAGGGTGGCACATCTTCAGGTCGCGGCAGGTGCGGGCGGGGTTCTTCTTGGTGCCATCAGGGCTGCGGATGCTCTCAATCTGCTGGCTCAGGGACTTGAGGGTGGTGTCAACCTCCAGGTCACGGTCGCGCATCACATTGGCGTCATCAGCACGGAAGTGACGGAAGGGATCGGGTGCCTTCTCCTGTGGCTGGGCAATGAAGCCAATGTCGAATCCACCACCAGAGGGTCCAGGAGGTCCAGGGGGTCCAGGGGGTCCCTGCATTCCAGTGAATCCTCTGTGTCCCTTCATGCCTCTTTCTCCAGCCTCTCCAGTCTCACCCTTGTCTCCACGGGCTCCAGCAGGTCCCTGTA

Function

symbol description
col1a1a Predicted to be an extracellular matrix structural constituent. Acts upstream of or within several processes, including bone mineralization involved in bone maturation; fin development; and fin regeneration. Located in cytoplasm. Is expressed in several structures, including head; integument; myotome; pectoral fin; and vertebra. Used to study osteogenesis imperfecta and osteogenesis imperfecta type 3. 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).
col1a1 Enables identical protein binding activity; platelet-derived growth factor binding activity; and protease binding activity. Involved in several processes, including animal organ morphogenesis; collagen biosynthetic process; and collagen fibril organization. Acts upstream of or within skeletal system development. Located in extracellular space. Part of collagen type I trimer. Colocalizes with collagen-containing extracellular matrix. Implicated in several diseases, including Ehlers-Danlos syndrome arthrochalasia type 1; aggressive periodontitis; bone disease (multiple); cutaneous leishmaniasis; and dentinogenesis imperfecta. Biomarker of several diseases, including alcoholic hepatitis; autoimmune disease (multiple); chronic obstructive pulmonary disease; end stage renal disease; and lupus nephritis.

NR:

description
PREDICTED: collagen alpha-1(I) chain isoform X2

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU466298 False 1205 lncRNA 0.40 2 1878449 1952537
TU466303 False 1221 lncRNA 0.54 4 1952614 1955333
TU466304 True 2247 TUCP 0.45 5 1950976 1954313

Neighbor

gene id symbol gene type direction distance location
rapgefl1 rapgefl1,LOC107662398,LOC107667751,LOC107740631,LOC107585050 coding upstream 25597 1806923 ~ 1852852 (+)
casc3 casc3 coding upstream 96451 1770290 ~ 1781998 (+)
LOC111192052 msl1 coding upstream 110501 1763289 ~ 1767948 (+)
LOC103042716 LOC108412287 coding upstream 143834 1727451 ~ 1734615 (+)
igf2bp1 igf2bp1,LOC108412303,LOC107717213,LOC107582884,LOC107667758,LOC106607494 coding upstream 154331 1662780 ~ 1724118 (+)
G338826 NA non-coding upstream 18082 1854597 ~ 1860367 (+)
G338817 NA non-coding upstream 177373 1700784 ~ 1701076 (+)
G338762 NA non-coding upstream 271430 1606626 ~ 1607019 (+)
G338754 hoxb9,hoxb9a,LOC107585091,LOC107662432 non-coding upstream 321818 1554515 ~ 1556631 (+)
G338748 hoxb7,hxb7a,hoxb7a,LOC107687793,LOC107582958,LOC107717221 non-coding upstream 335435 1542137 ~ 1543014 (+)
LOC111192066 NA other upstream 861098 1012156 ~ 1017351 (+)
LOC107197228 NA other upstream 1110843 682779 ~ 767606 (+)
G338430 nupr1,LOC103367043,LOC108413333 other upstream 1494195 379811 ~ 384254 (+)
atxn2l atxn2l other upstream 1558752 303017 ~ 319697 (+)
LOC111192057 zwi other upstream 1834933 36033 ~ 43516 (+)

Expression


Co-expression Network