col6a1 (col6a1,LOC107685955,LOC107715812,LOC107718214,LOC107677507)


Basic Information

Item Value
gene id col6a1
gene name col6a1,LOC107685955,LOC107715812,LOC107718214,LOC107677507
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035901.1
NCBI id CM008304.1
chromosome length 40584741
location 8551970 ~ 8636478 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022669538.1
CTGTCTCTCCGCTCAGTCCGCTGCTGCTGAAGGAAGGCAGGGAGGATTAAACTCACTAAAAgttgcattaaaataaaatctatccTCCCTCCAGCCCCAGACCCCCGGTACCGCCTCTCCTCCTACGCGGGATCAGAGCTCCTCTGCGGCCGGTGCTCACGGCTGAAGCGCGGGGGATCATCAGCGGAGCATGGCGCTCACAGGGCTGCTTCTAGCGGCGGCTGCGCTCGGCTCGCTCGGGCCGGGACTGCTGGCTCAGGACGCGGTCAGGAACAGATTCAGAGAATGCCCGGTGGACCTGTTCTTCGTGCTGGACACATCTGAGAGTGTGGCCCTGAGAGCCAAACCGCCAGAGTTTTACATCAACCAGCTCAAGACCTTCACTAAGAATTTCATCGATGAGCTGAAGGACGTACGGCAGCCGTGTGATCGCTATGTGACGTGGAACTCTGGAGCTCTGCACTACAGTGACGAGGTGCAGCTGATCGAGGGTCTGATGGACCTGAAGACGAGGAGCAACGATCTTAAAAGATCCATAGATGCCATCAAATACATCGGCAAGGGAACCTACACTGACTGTGCCATCAAGGAGGGCATCGCTGAGCTGCTCAGAGCGGGATCCCACTACAATGAGAATAAGTATATAGTGGTTGTGACGGACGGTCACCCCGTCACAGGCTATAAGGAGCCCTGCGGAGGAATCCAGGAGGCGGCCAACGAGGCCCGGCAGCACGCCATCAAAGTGTTCGCTGTGGCCATCAGCCCCGACCAGGAGGATACCAGACTGTCCGTCATCGCTACAGATCAAAGCTACAGACAGAACTTCACCGCTGCAGACAACGCCCGCTCCACCACCATGAACACCATTCGCACCATCATTCACATGATCaCCAATGAAACTAAGGATGTgtGCTGCACCTTTGAGTGTAATGCTCCTGGAGGCCTTGTTGGTCCTGGTGGAGAAGCAGGATATAGAGGCGAGACAGGAAGACCGGGGATGCCAGGAGAGAAGGGAGACACTGGGCCTGTGGGAAATGCTGGAGATCCCGGGCCGGTTGGATACCAAGGCATGAAGGGAGACCAAGGAGTGAGAGGTGAAAAGggagagagaggacaCAAGGGTTTTAAGGGAGATAAAGGACACCCGGGAAGAGACGGGACTGATGGGCGTAAGGGAGAGCCGGGGTACGCCGGGCTGCCGGGCTGCAAAGGGTCTTCCGGTCCAGACGGTTTACAAGGAGAGCAAGGACCTAAAGGAGACCCTGGTCCTTATGGACCCAAAGgagaaaaaGGTGAGACTGGCAAAGATGGCGGCCCAGGAAGACCTGGTAACTACGGCGCTCTTGGAGATAAGGGTGACAGAGGACCCAGAGGAGCCAATGGGGATAAAGGCGAGAGAGGAGATGATGGACCACCAGGACCGGACGGCCCACGAGGAGATAggGGTTTAGCAGGAGAGAAGGGTGAGCAGGGGTCTCGAGGAAGCCGAGGACCCAGAGGAGAGCCTGGTGAGCCTGGTCCTCGGGGCGAGCAGGGACGAGAGGGATCAGCAGGACCCAATGGAGACCCAGGTCAGGCAGGAAGAGCTGGAGCTCCAGGTTACCGTGGTGATGAGGGTCCCCCAGGACCAGAGGGCCCTAAAGGACCCAGAGGGATTAAAGGAGCCCCTGGAGACAGAGGTCTGATGGGAGAGAGGGGAGGAGATGGACCACAAGGAAACGGAACAGAGGGTTGCCATGGTTTCCAgGGTTATCCTGGTCCCAGAGGAGATCCTGGAGAACCTGGAAGCAGAGGAACCCCTGGGCCCAAAGGAGACGATGGAGAAGCTGGTGATCCTGGAATAGATAACGACCAGCCGGGTCTGCGCGGACCCAAAGGAGCCAAAGGCCATCGAGGACCTGAAGGAAAATCTGGACCACCAGGACCACCTGGGCCTGCAGGAGCTGATgaCTGCGAGATCCTGGATATAATCATGAAGATGTGCTCTTGTTGCGAGTGTAAGTGTGGACCCCTGGACATTGGCTTTATTGTGGACAGCTCTGAGAGTATCGGCGCCACCAACTTCGCCATCGCTAAAGACTTCATCATCACTGTGATTGACAGGCTGATGAAGGATCAGCAAGTCAGAtttggTACGAATGAGTCCCGCGTTGGCGTGGTGCAGTACAGTGGAGCCAGCGCACAAGAGGCTGTGAGGCTTGGTGACCCCAACATCAATACCCTAACTGACCTGAAGCAGGCTGTTAAAGAGCTGCGCTGGTTGGCCGAGGCTACGTACACCGGAGAGGCTCTTCAGTTTTCTCTGGATAATATGATTGAGCGGCTGGTGAAGGAGAAGAGCATAGTGATCGTTCTGACCGATGGCCGTTCAGACACCACCAGGGACAAGGTGCCTCTAAATGTGCTGTGCGGTAAAGGGCTGAAGGTTGGAGGTGTGGGTGTTGTAGACTATGCAGGGAGACAACCCAGAGAAGagcagctggatcaggtggtcTGTCTGGATGATCCCAGGAAAGGGTTTTCCTTCGTCCTCGACAACTTTGGGATGCTCCTGGACGATAGCTTCCTGCAGAATCTGACTGACAGAATGTGTGAAGATAAGAAATGCCCCACTTACACTTGTCCAaTTTCCTTCAATGAGAATACAGATATCCTCATTATGATGGACAGCTCGGCTAGCGTGGGTTCCAAGAACTTCAAGATGACTCAGGACTTCACCAAGAGGCTGGCCGAGCGCTTCCTGTCCGCAGAGCGGCAAAGAACCGTGCAGGTCCGCGTCGGAGTCGGCCAGTACAGCAGCAGCGCCAAGATCGAAGCTGAATTTTCCTCCAACACCACTCAGGTGACTGCCCAGATCGAGGAGGCCACCTTCCAGAACGCTGGTACCCAGGTGACGGAGGCTATGACCTTCGCCAACACCCGCTTCAGAGGCGGCAGACCCAGGAAGAagaagctgctgctgttttcagACGGCCGTTCACAGGGAATCAACACCGTGCAGATAGAAAAGGCGGTGGAGCAGCTGAACACCAATGGCATCGAGCTCTACGTTCTGGCTGTTGGCAATCAGGTGAACGAAGCCAACCTTCGCGCCTTGGTGAGTCGGGGGCGTCCCTACGACAACACGTACGCCTACCGCCATCTCTTCAAAGCCCCCGACTACCGCGCCATGCTCAGGGGGGTCTTTTACCAAACTGTGTCACGAAAGATTTCACTGGTCTGAAgggggagagagtgagtgtgggtaaaataaaaaaatacgaAAATacgaaaaaaagaaattagaaGATAATTGGGAAGTTGGTGGGGCAAAAAAAACTTTCGGGGGtattatagagagtatagagtataaagTATAGAGGGAGGGGGGGCAGTAGAGCACAACAAGTATTTTCTCAATTCGATTTTTCTTCATTGATTTTCATTCGATTGTGACTCATATCAGAATTTACATCATGTAGGGTTTCTCATagtcagtgattttttttttttttttttgcttttaaagtGACAAGATAATGATTCTGTCCAATAATGATAGAAATGGTTAATAAATCACAGTCTTTAGAAAAGGGAAAGAGATTAAGATGAAAATCTCACAAAAATCTCACAATCAAGACATATCAACATATCGACATATAGTAATGTGCTTTTGTTGGCCCCTAGTTGATTGTTTGGTGCTTTGAGCTATTTGACCTATACGTATACATTGGACGATACGTTTTACTTTTTTGAATGTGTCCTTATCCTGAATGTTTAATGTAGGGATGCACCGATCTCTTATTAGGATCGGAAATATCAATGACATCATATGTGCCATTTAGAATTGGCTGAATCAACTGATGGATAATAAGATTAGGCAGATTTATAGTATCCTGTTACTAACTATCagagagtaatccagctcagaaaaacagcccAACTGTTAGTAGCGTCACGGCTCCACCCCAGCTAAGCCTGGCTGTTGTGATTAGCATTGTGATTAGCCTCCTCCAAACCTGCTAAGGCCTTctgtgctgtgtctgttagcatagcAGCTCCACCTCAGCCGAGCCTGGATGTTAGCATCACTGCTAATCTGCTCAAAACCTGCTGAAGTTAGCTGCTTTGTCTGTATCTGCAGTGTGGTTCCAAGCCAAGGAGAACCCAGATGTTAGCATTGCTAAGGCTAActtctgtgtatctgtgtatcgGCATCGTGGCTCAAATCCAGCCGagactggctgttagcattgcggctaaccgactgaaacactgaaacgTTTATGTATCTGTTTTGATATCCGAACTAAAACACCACGatcggtgcatccctacttttatatatttgaaaacCTTTCATGTTTGCTGGTCAAGAGTTGAGCCTCTCTCTATGAGATGATGTGTAAACTGAGTCAATCTCCCTGCAAATGCTGAAATACAccttttttaagtttaagtaagaacttacattgtatttttcttaAATCTGGGGTAAAAACAAATCTATCAAAGTTCCATTTATCTCATTTTTGAATTCCATTATGTATCACTTGAATGGAAATTTGGTGCTAACAGTGTTCACTCAGGCTCCTCACgtaaatacaaaagcacactTGCTTTAAATTAGTTCCTGCCTTTAAccaaagagattttttttaccactaGAATTGTATAAAATTTTATATGTgtcagaaatgtaaaatgtaatgtcaTTTGGAAACAGCTTTGAGGATGCTGTCGAGGTATTTTCAATAAAGAATGCTTCACTCCA

Function

symbol description
col6a1 Acts upstream of or within locomotory behavior and skeletal muscle tissue development. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in caudal fin; dermis; mandibular arch skeleton; muscle; and pleuroperitoneal region. Used to study Bethlem myopathy and congenital muscular dystrophy. Human ortholog(s) of this gene implicated in Ullrich congenital muscular dystrophy. Orthologous to human COL6A1 (collagen type VI alpha 1 chain).

NR:

description
collagen alpha-1(VI) chain-like isoform X1

GO: NA

KEGG:

id description
K06238 COL6A; collagen type VI alpha

RNA

RNA id representative length rna type GC content exon number start site end site
XM_022669538.1 True 4753 mRNA 0.50 35 8551970 8636478

Neighbor

gene id symbol gene type direction distance location
atp13a3 atp13a3,LOC106613657 coding upstream 53031 8459515 ~ 8498939 (+)
tmem44 NA coding upstream 151113 8382256 ~ 8400857 (+)
lsg1 lsg1,LOC107715771,LOC107736209 coding upstream 174145 8361837 ~ 8377825 (+)
xxylt1 xxylt1 coding upstream 389012 8102275 ~ 8162958 (+)
pcdh17 pcdh17,LOC107572292,LOC107687749,LOC107739552,LOC107718221 coding upstream 1538183 6877772 ~ 7013787 (+)
col6a2 col6a2,LOC107685953,LOC107718216,LOC107551805 coding downstream 24521 8660999 ~ 8701071 (+)
LOC103028050 zgc:162816,LOC108428454,LOC107691276,LOC107737263,LOC107687385 coding downstream 65964 8702442 ~ 8716742 (+)
LOC103026226 LOC108439428 coding downstream 191610 8828088 ~ 8919744 (+)
LOC103025921 phka2,LOC108439424,LOC107677496,LOC107715813,LOC107718215 coding downstream 306364 8942842 ~ 8986586 (+)
mcf2l2 LOC108439422,LOC108270998 coding downstream 361672 8998150 ~ 9104845 (+)
G40989 NA non-coding upstream 29561 8521281 ~ 8522409 (+)
G40984 NA non-coding upstream 40358 8504618 ~ 8511612 (+)
G40986 NA non-coding upstream 47660 8502870 ~ 8504310 (+)
G40985 NA non-coding upstream 49228 8500914 ~ 8502742 (+)
G40987 NA non-coding upstream 51906 8499763 ~ 8500064 (+)
G41040 NA non-coding downstream 126671 8763149 ~ 8765880 (+)
LOC111192503 NA non-coding downstream 133576 8770054 ~ 8771261 (+)
G41087 NA non-coding downstream 168506 8804984 ~ 8805203 (+)
G41099 ncbp2 non-coding downstream 300940 8937418 ~ 8942071 (+)
G41097 NA non-coding downstream 318325 8954803 ~ 8988103 (+)
LOC103028988 tdo2b,tdo2,LOC108428450,LOC107551803,LOC107718213,LOC107685956,LOC107715811 other upstream 27657 8512104 ~ 8524313 (+)
LOC107197696 NA other upstream 725056 7826523 ~ 7826914 (+)
G40756 NA other upstream 2018296 6533365 ~ 6533674 (+)
snrpa1 snrpa1,LOC107742305,LOC107691971 other upstream 3239626 5305687 ~ 5312344 (+)
LOC103046723 LOC108439632 other upstream 4036359 4504397 ~ 4515611 (+)
LOC103027717 LOC108428455 other downstream 82082 8718560 ~ 8762792 (+)
LOC103022991 NA other downstream 285450 8921928 ~ 8935486 (+)
LOC103037553 LOC107753862,LOC107597184 other downstream 1359231 9995709 ~ 10022964 (+)
G41828 LOC108429549,LOC108271147 other downstream 2934748 11571226 ~ 11580329 (+)
tmem161a tmem161a,LOC107728546,LOC107687722,LOC107554814,LOC107599454,LOC107719614 other downstream 3032969 11669447 ~ 11709683 (+)

Expression


Co-expression Network