G64252 (col4a6)


Basic Information

Item Value
gene id G64252
gene name col4a6
gene type non-coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047598.1
NCBI id CM018544.1
chromosome length 33267568
location 13878030 ~ 13911820 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU76137
CAACTGATGACAAGtctgtaatgtaataaatgacAGGTCAGTGTGGTCCATTCATATCATTTAGTTTCAACACTTTATTAATTAGGGAGCACAATTATACTCTCTGTTTATTGAAACagctttggttaaaaaaaaacaaaactctgcACCAAAACTAATACTGGAAATCCAGCTATGTGATAGACCTAAATTTACGTAggagaaaatgtatttatgtaattacATGTAAATCAgtgtaagaaaaatacaaatactgttataatatacaAAATAACAGCAGTGATTACAGACATTTCCTGCAATTGTAGGTATACATTTGAGTGTGGAATATCTAATGCACAGATGTTCTGCTCAGCTGAATGGCTCCTTGTAGGCAACATTGTAGTACAGGTGAAAttatgagtatgaaaatgatacaGTTCATATGTATGTAGAGAGTGAAGTCTATTAATCAGATCATGACACTGTTTTTTAGAGTTATTCGAGATATTTGGCAAGGCACCTGGTAAAAGTGGAATGTTAATTTTCTACAGTTGCTAATactcatattattttttttccagatattcATTTCAGTGCAATACTTTAAGGGTACATGTGTGGGGGGTTAGAGAGGATTGTAATTTCAAGTGTTAACCATAAGCCACAATCTTCTTCATTTGTGCTGGTTTGCCCATTTGCCCACTTTCCTCAATCAAGCAAGCAAGATATTATAGTTTGTGCCATAtgtcagggaaccaacccccAAAACATGTGATCATTGATTCAGACTAGCGCACTTTGGACTAGGTGAACCAGAAGATTTTGGCGTGTGTTACAAAATGCCTGTGGTCTCACATTAATGTTTCAGTGCTTCCCGGGGATTTGGGACACACTCTCCGAGGTAGCCATGAATATGTAAGACAAACAATGactagttaaaataaaaataaaacaatgcagtTTCTTGTAGCACCAATGTtgataagtgaaataaaaaaagcaaaaataaaacctcTTTACTTGGAGCTGTTTGCCCCTTTTAAACCTGGCCTTGGAGAAGGCTACAAAAAGCACCAAGAAGAGAGGGTCTCatacagtcagtcagtcagtcagtcagtcaatatTTGCTTTCTCATTTCTTGTTCTCTATTCTTTCTGTTTAAagttctgttctctctgtcccctctcctctccttgAGTGTGCACAGGCTACAAGATCTTCATGCAGACCTGGCAGCGGCTGATGCGGCTACGGTACTGATCTCCCTTCAGGGTCTCTGAATTAGGACTTTGTGTAAACTGCCTCTGCTGTTGCACAGTGGTTAGCCAGAAGCTATGTTTGTTGTTGAAGAAGAAACAGGTGCCCCGAGCCCCGTTGCATTCAATAAAAGGTGTTGCACGGAAGTCTTCTAAACATGAGCCAGGAGAAACCAGGGACTGGCCACCTCCCTCAGCCCCCGCAGCTGTGCATAAGGAAGGAGTAACCAATCCACAGGCTCCTCCACCCCTGTGGACAGGGGGGAATAGTGATGTCTTGGCTGTGGACAGCCACAGCTTGAGATGGGGcttcacacactgaacaacGGCTGATGTACTGAGTAATCTGCTCATTGGCCACAGGCATCATGGGAATGGGTGCTGTTGTGGACAGCCAGTAGGACTTGTCATTGCGGCTGGCGTAATAACAGAGCTCATTGGTTGTGCAGTAAAGGAAGGGAATAGTGCTGAAACGAGGTAGACAGGAGCCAGCCAA
>TU76139
tttaatatctgatacGTCCCCTATCCGGGGACCATATATTAAATTGATTTTTGGAGCAGGGAGATGGAATAGGGGCTTGCTCCGTCCACTCCACGCATCATCGCTTCTCGGCCTTTTGGCTAAGATCAAGTGTAGTATCtgttcttatcagtttaatatctgatacGTCCCCTACCCGGGGACCATATATTAAATTGATTTTTGGAGCAGGGAGATGGAATAGGGGCTTGCTCCGTCCACTCCACGCATCGACCCGGTATTGCAGTACTTCCGGGAACGGTGCACCCCCTTTATCCTGTTAAAGAAAGAGTTCAAGAAATGTGGATTTTGAAGGTGGAGTGGTTCTCGGAGGAATTTAGATTTAGTTTTAATGAACTGATTAGTTCAGGCGTGTTCTTTGGATTATGCttgttgtgtgtggtgtgtttgatATTAGGGATGCAGAGTGAGCTCtccttgtgttttatttcccgAGGTTGTCGGTTTATTTCATGTCAATGTATTGATGAGAAAACCTAGTGAAGGATCAGACTCTCTGTCCTGTCTAGAAACACTTCCCTTCTCCTGGATTGACTGTTGTCAACtgagtgttttttctttttcttttttttttaaatactgaacTATTTAATCTTGGTTTGCTCTTTgtctcttttacatttttatttttaaattcccaATGCTGGATTGGCTGTGAGTCTacaagtatttatttttatttctataggtTTCCATGGAGCTGGAAAGATCATCTGTGCAAACAACTGGGAGGATTCTGCAGTTTACTCTTTACTCCCTGACACTGTTCTGGTTCTGGACCCCCTGGAGGTGGTGGCTGAAAGGAGAATGGGATCCAAATTGTTGGCCCATTATATTACATAGGTGTATCTATAAACctattctgtatttattataatgttgGTATATTTTTCCATGCACTGTATAGTGGTTTATAATGTCTCACTGTTATGGCAACCCGATTTTCCA
>TU76141
ATAGGCGATTCTGCCCACcgcacttttttcttttctttttcttttttattttgcaaatagAAAAAGAGCACACAACTATTTTTCTTTAGATGAACAGCATATTTTCAAGGTATCTGGGATCTTGGACCGAGTGAACGGCGAGGCAACCAATCACAGTGAAGCTGTGTGTGACCCCGTcatcactaacacactgcagcaagTTAGTGGCAGCTGTGGGAAGGTTGGCTTTCAGGTGATGTCTTGAGGGCCCGAATTACCTAAATTAGCCACATTAGCTAGCGGACTGGACTTGACAAGAAGgtTTCCATGGAGCTGGAAAGATCATCTGTGCAAACAACTGGGAGGATTCTGCAGTTTACTCTTTACTCCCTGACACTGTTCTGGTTCTGGACCCCCTGGAGGTGGTGGCTGAAAGGAGAATGGGATCCAAATTGTTGGCCCATTATATTACATAGGTGTATCTATAAACctattctgtatttattataatgttgGTATATTTTTCCATGCACTGTATAGTGGTTTATAATGTCTCACTGTTATGGCAACCCGATTTTCCA

Function

symbol description
col4a6 Predicted to be an extracellular matrix structural constituent. Acts upstream of or within axon extension involved in axon guidance and basement membrane organization. Predicted to be located in basement membrane; extracellular region; and membrane. Predicted to be part of collagen type IV trimer. Predicted to be active in extracellular matrix and extracellular space. Is expressed in several structures, including head; hypodermis; solid lens vesicle; swim bladder; and swim bladder bud. Human ortholog(s) of this gene implicated in AMME complex and X-linked deafness 6. Orthologous to human COL4A6 (collagen type IV alpha 6 chain).

NR:

description
PREDICTED: collagen alpha-6(IV) chain isoform X2

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU76137 True 1735 lncRNA 0.41 3 13878030 13880728
TU76139 False 987 lncRNA 0.40 3 13902924 13909305
TU76141 False 560 lncRNA 0.43 3 13902924 13911820

Neighbor

gene id symbol gene type direction distance location
col4a5 col4a5,LOC106608922 coding downstream 80585 13747239 ~ 13797445 (-)
usp12b LOC101154659,LOC107707922,LOC108412583,LOC106934565,LOC101071205 coding downstream 183030 13684736 ~ 13695000 (-)
cnpy4 cnpy4 coding downstream 344766 13527886 ~ 13533264 (-)
ntn5 LOC108267835 coding downstream 356504 13505741 ~ 13521526 (-)
si:ch73-335l21.4 LOC108268348 coding downstream 488065 13388333 ~ 13389965 (-)
sema4f sema4f,LOC108267878 coding upstream 863 13912683 ~ 13967911 (-)
dok1b dok1 coding upstream 106638 14018458 ~ 14033040 (-)
LOC113539907 paip2b,LOC103027680,LOC108428580,LOC107721669,LOC108426126 coding upstream 130131 14041951 ~ 14054035 (-)
cct7 cct7,LOC107697251,LOC107721663,LOC107691460,LOC107583281,LOC107744273 coding upstream 167885 14079705 ~ 14086981 (-)
plcb3 plcb3,LOC108267602,LOC108428576 coding upstream 245616 14157436 ~ 14220288 (-)
G64261 LOC108267418 non-coding downstream 5751 13869009 ~ 13872279 (-)
G64222 NA non-coding downstream 134432 13738589 ~ 13743598 (-)
LOC117597078 NA non-coding downstream 154114 13716325 ~ 13723916 (-)
G64147 NA non-coding downstream 308433 13564633 ~ 13569597 (-)
G64164 NA non-coding downstream 322953 13554864 ~ 13555077 (-)
G64294 m1ap non-coding upstream 80751 13992571 ~ 13996399 (-)
G64296 NA non-coding upstream 86915 13998735 ~ 13999683 (-)
G64305 NA non-coding upstream 104775 14016595 ~ 14016950 (-)
G64291 NA non-coding upstream 128846 14040666 ~ 14041288 (-)
G64434 NA non-coding upstream 266754 14178574 ~ 14230828 (-)
zgc:194312 LOC108267841 other downstream 437510 13436056 ~ 13440520 (-)
acap1 acap1,LOC107731905,LOC107683535,LOC107595305,LOC107675497 other downstream 569552 13285999 ~ 13308478 (-)
tmem256 tmem256,LOC107659713,LOC107564775,LOC107560291 other downstream 1388468 12484723 ~ 12489562 (-)
LOC113539775 NA other downstream 1600361 12272218 ~ 12277669 (-)
si:dkey-165a24.9 si:dkey-165a24.9,LOC108267153,LOC108434867,LOC105903083,LOC107572570,LOC107753961,LOC107659726,LOC107588125 other downstream 1628276 12246962 ~ 12249754 (-)
G64436 NA other upstream 320989 14232809 ~ 14243681 (-)
tbc1d19 tbc1d19,LOC107660707 other upstream 1967651 15879471 ~ 15904355 (-)
smim20 NA other upstream 2061759 15973579 ~ 15991985 (-)
acox3 acox3 other upstream 2142708 16054528 ~ 16071692 (-)
tnfsf12 tnfsf12 other upstream 2507344 16419164 ~ 16426624 (-)

Expression


Co-expression Network