AMCG00001708 (col9a1)


Basic Information

Item Value
gene id AMCG00001708
gene name col9a1
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030143.1
NCBI id CM030143.1
chromosome length 20516281
location 12984899 ~ 13011789 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00001708
TTCCCATTTTCCGTGGGCGCAGTTCAGAGGCGGGTGTGTTCTCAGTTAAAGATCGGAGAAGATGATTTACCAGGGTTTGACATTATTTCACAGTTTCAGCTAGGCGCGGTGACAACCAGAGGCACTGCCCAAAACGTGGCCGGGTCAACGCCAATGCAAACTGCATACAAAGTAGGACCGGACTACAATTTCAAGATTCAAACAAGGTCCGCCTATCCTCTTGGGCTACCGGAGGAGTTTTCTTTTCTCACGACTTTCCGGATGACTGGGAGCACAGTGGACAAGAACTGGAATATCTGGCAGATTGTGGATTCAACTGGCACTGAGCAAATGGCAGTGAGGCTCAACGGGGACACCCAGTCTTTGGATTTCTCCTGCACCACGACGGACAACAGACCCCAGTCCGCCGTTTTTTCCTTTCTGCCATTCCTGTTTGACTCCCAGTGGCACAAGGTCTTGCTCAGCGTGGAGAAGGGGGTCGTGACTCTTTTTGTTGACTGCATTAGGATTGACTCCCAGAATATTCTCCCCAGAGGCGCCGTGAGTCTCGATGGCTTTTCAATGATTGGGAAATTAAAGGATAACCCTGCCATGGCAGTAACAGTGAGTCTACTTCACTTACTTCATATTCAGTTCATAGAGACCCGCAGATTTCGACAGAAAGGTGGGAAATATCACATAGAGtttgaACTTCAGTGGATGCTGATTCACTGTGATCCCAAACGCCCCCACAGGGAATCTTGCAATGAACTTCCAGCCAGAAGATCGAAAAAGGACGGATTGCCTCTTCTAGCCATTGGGGAGACCATGGCTAGTGCCACAAGCAGTCGGGGGCCACTTCTTTTGGTTTTCCTGCAGATTGTCTTCATTTGCTCGGCTCAAAGAGGCCCAGTTGGCCCCCGAGGTCCAACGGGCCCCCCAGGTCCTGCCGGGGTCCCTGGAGTTGATGGCATAGATGGAGACAGAGGTCCTGATGGCTCAGATGGACCCCCGGGCCCAGATGGGGATGCAGGTAAACCTGGTTCTGCAGGATTGCCAGGAATGCCAGGAGCTGATGGATTAACTGGACCTGATGGGGATGCTGGCCCAGATGGTCCACTGGGACAAAAAGGTGAACCAGGGAAAGTTGGGCCCCGTGGAGCAGCCGGTTCAGGGCCAGATGGACCACCTGGACCACCTGGTCCAGGGGGACTTCCTGGTGAACTGGGACTTGTTGGACCCCTTGGTGACATTGGAGTGAGAGGGCCTGCAGGGCCCCCTGGACCCCCTGGACCACGAGGCGCTGCTGGGATCCATGACAGCACTGCAGAGCTGTGTCCCAATTCCTGTCCCTCTGGTGCTTCGGGCCATCCTGGTCTTCCAGGTATGAAGGGCCACAAAGGTGTCAAAGGCGAATCCGGTGAGCCAGGAAAGCAAGGACACAagGGGGAAGAAGGAGACCAGGGAGCCACTGGGGAAGTTGGCGCTCAAGGCCCaattGGTCCCCAGGGAATAAGAGGAATCACTGGAATGATGGGGTCAAAGGGTGAAAGGGGGCCCCGCGGACACGACGGGGAGCCGGGCCCTCGGGGCATTCAAGGCGCCTTTGGTGACCAAGGTCAGAGAGGCGTGATGGGCGAGTCTGGGCCAAAAGGCAGTCAAGATCAAGGGGAATTTCAGGTCTTCCTGGTCCAAAAGGAGAACCTGGATTACCAGGAGTGGATGCCCGTGAAGGGATTCCTGGAATGCCAGGGGCAAAGGGCAACAGTGGGAAGCCGGGAGCTCCAGGAGAAGGCTTGCCTGGTAGTTATGGCCCGAAAGGAGTTGCTGGTGAGAAGGGTGAGAGAGGCGAGCAGGGTCCCCCAGGCGGCCCCGGATTCCCAGGACCCCGTggAGCAAAAGGTGACCTCGGTCTGCCAGGCCTCCCCGGTCCCCCAGGCTTGCCTGGAGTCAAAGGAGACAGGGGAGAAGCTGGCGCTGAGGGCACTCCGGGAGAAAAGGGAGACCAAGGTGATCAAGGGGAACCTGGAGCTAAAGGATCGACTGGCAATCCCGGGGAGCCTGGCAACCGAGGCCCAGAGGGAAGCCGTGGCCAGCCGGGTATTGAAGGACCCGCTGGCTCTCCGGGCCCCAGGGGAATGCAGGGAGATCGGGGCATGCCAGGCTTGCCAGGGTCTCAGGGCCCAGCGGGTAAAGAGCCAAAGCAGTTGGCTCAACTGGCAGCCAGTCTGCGTAGGCCTGAATCAGGAGCTGCTGGCCTGCCTGGCCGACCCGGGCCTCCTGGGCCTCCTGGTTCCCCTGGGGACAGTGGCTTCCCTGGACAAGCTGGATCTCGAGGGTTACCTGGGCTCAAGGGGCCTTCAGGACTCATTGGCCTCAAGGGACCCAAAGGTGAAACGGGCGACCGAGGAGAGAGAGGCGTCACAGTTCGAGGGCCTAAAGGCTTGCCTGGGGCTCCTGGTCTTCCCGGTGAGCCCGGCAGACCTGGTTATGGTCGCGACGGGcgtgatggagagagaggccCACCTGGCTTACCTGGACAACCTGGCGTTCCTGGTCCTCCTGGCCCCGCTGGCCCGAATGGCTATTGTGACCCATCAGCATGCAACTTGCAAGCCATCGCCTCACCACTGTCTGTGAAGGACTCCAACATGAAAGGACCTTGAGCTGGTCCTATGAGTCATCAGTAACTGCACATCTGCAGTAGGTCCAGGAGAACTGAAAGACAAATGGAGAAGTCTCCGAAGCAGACTTTATAAAGAGACAGacccttttttttaatgcaatggtgctcaatacattatttttttttctacctgcAACGTTTCTTCCCTTCTAAATGTGCCTTATAATTATAATGCCAATACCAAGAAAGGCCCCTCATTCCAGTATTCCAGTGGACAATGAATATTAAGATGCACCCAGTTATTAGTGAAACATCAACGAAGGAATAATGTCTTACCTCAGCTGTAGCTTTTGCCTTCTGTgtgtactgtaaaataaaattcccTAGAAGCAACCTGAATTCTTTCTAGACaaagtgcatttcattttgtcgCGTGTATGTACTATATTGTTAACTAAAGATGAACGTCAACCATAACAAGACTGAACAGCCTTAGCATTTTGTACAGAAATGACTGCCCATGTAAAAGAATCCAAAAACAGGCTACACTGAATACAATGCATACTGTAAATCTCTGTAAATGTGTGATTTCTGGATATTCATGCAATTATATTTCATGTGAAATTACTTTCATAAGGAtgagtgatttgtttttttttgccagttCTTCACTCAGCGACTCCTCAGATATGTTCCTTCTGTGTGGTGACAGCACAATGAGAAGGCAGTAAGCCACTTTTATTGGTCATGTTTAGGAAATATCCAGAAGTAAGTTTTATgatgatattatttattatatgaagGTCTAAGGTGACATCTAAGGTTGTACAAAAGcagaaacaataaatacaaattttaataaa

Function

symbol description
col9a1 Predicted to be an extracellular matrix structural constituent. Predicted to be involved in extracellular matrix organization. Predicted to act upstream of or within chondrocyte proliferation; growth plate cartilage development; and tissue homeostasis. Part of collagen type IX trimer. Implicated in Stickler syndrome; multiple epiphyseal dysplasia 6; and osteochondrodysplasia.

NR:

description
PREDICTED: collagen alpha-1(IX) chain

GO: NA

KEGG:

id description
K08131 COL9A; collagen type IX alpha

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00001708 True 3468 mRNA 0.53 34 12984899 13011789

Neighbor

gene id symbol gene type direction distance location
AMCG00001699 b3gat2 coding upstream 132176 12844164 ~ 12852723 (+)
AMCG00001698 NA coding upstream 192068 12787082 ~ 12792831 (+)
AMCG00001695 NA coding upstream 458504 12521489 ~ 12526395 (+)
AMCG00001689 LOC102208791,LOC101485550,LOC101166076,LOC107375892,LOC105023253,LOC107098978,LOC103476462 coding upstream 464194 12517012 ~ 12520705 (+)
AMCG00001688 NA coding upstream 469394 12508278 ~ 12515505 (+)
AMCG00001709 lmbrd1 coding downstream 129308 13141097 ~ 13150256 (+)
AMCG00001718 NA coding downstream 580402 13592191 ~ 13602628 (+)
AMCG00001717 NA coding downstream 606505 13618294 ~ 13661682 (+)
AMCG00001723 NA coding downstream 649992 13661781 ~ 13667350 (+)
AMCG00001719 NA coding downstream 660792 13672581 ~ 13674756 (+)
G159798 NA non-coding upstream 108213 12785795 ~ 12876686 (+)
G159800 NA non-coding upstream 174164 12799509 ~ 12810735 (+)
G159775 LOC102207824,LOC102800191,LOC107693914 non-coding upstream 305410 12676811 ~ 12679489 (+)
G159594 NA non-coding upstream 1337447 11625671 ~ 11647452 (+)
G159483 NA non-coding upstream 1545287 11436662 ~ 11439612 (+)
G160024 NA non-coding downstream 1255599 14267388 ~ 14267722 (+)
G160036 NA non-coding downstream 1294236 14306025 ~ 14306260 (+)
G160107 NA non-coding downstream 1513948 14525737 ~ 14526508 (+)
G160116 NA non-coding downstream 1546977 14558766 ~ 14563369 (+)
G160129 NA non-coding downstream 1617514 14629303 ~ 14632490 (+)
AMCG00001691 NA other upstream 651199 12329979 ~ 12333700 (+)
AMCG00001645 NA other upstream 2227041 10747489 ~ 10757858 (+)
AMCG00001643 spred2 other upstream 2307045 10655187 ~ 10677854 (+)
AMCG00001630 NA other upstream 2825073 10157734 ~ 10159826 (+)
G159174 NA other upstream 3070235 9913308 ~ 9914664 (+)
G160026 NA other downstream 1257826 14269615 ~ 14270190 (+)
AMCG00001760 mpc1,LOC107725004,LOC106589821,LOC107693783 other downstream 2319831 15331620 ~ 15334580 (+)
AMCG00001762 NA other downstream 2420548 15432337 ~ 15439031 (+)
AMCG00001814 ryr2,LOC106456445,LOC108410403,LOC106906861,LOC101062804,LOC103129799 other downstream 3225473 16237262 ~ 16377860 (+)
AMCG00001841 NA other downstream 4167805 17179594 ~ 17182601 (+)

Expression


Co-expression Network