AMCG00008403 (rfx1,rfx1a,LOC108239327,LOC105013142)


Basic Information

Item Value
gene id AMCG00008403
gene name rfx1,rfx1a,LOC108239327,LOC105013142
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030126.1
NCBI id CM030126.1
chromosome length 46242406
location 609033 ~ 629437 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00008403
ATGCAACGAGTGCTCGAGAGTGACGTCATGCCGCGACACGTCACAGACGAGCGCGTCGCCACTGCCCTGCACTCCCTTTACATCACATTTCTCTTCAGCGAGCCAGCAGACTCGGGGCGGAATGACAGGGCAGCGCTGTGGCGAGAAGGGACAGATgtaCGTGCAGTGTTGGGTCTGGCCATGGCGACTCCAGCATATGTGGCCGAGCTGCAGCAGAGCTCCCAGCCACCGGGGGGCGGTGTGGTGACGGGACAGAGCCAGCCCCCCCCCGCGCCGCCCCCTGCCCCGCCACAGTACCTGACCGAGCTGCAGGCCGCCGTCGCCACCCCCACTCCCGCCCCCTCTGCCTCCTCggcccccgccccccccgcgGGACAGAGCGTGACCGCAGCGCCCCCCCCCGCTGTGGCCCCACCCTCGCAGAAACCAGCAGCCCCCCCGCAGGCCCCCCCGCCCACGCAACGTTCGGGCTACACATACCCCGAGACACCCCTGTACACCCAGACCGGGGCCACGCCCTACTACgaccccccccccgcctcagGCTCACAGGTCACGACCCCTGTGACCTCCCAGGCTGCGTCCAGCCCggcggggggagggggcggggccACGGCCGTGTCCATGTTCGTGTCGGGGGGTGGCCAGATCGTGGCCAATCCCGGCGCGGCAGGCGCCAACCAGACCTACTCCCACACTACCAGAGCGTCGCCCGCCACGGTGCAGTGGCTGCTGGACAACTACGAGACGGCCGAGGGGGTGAGTCTGCCGCGGTCCACGCTCTACTGCCACTACCTGCTGCACTGCCAGGAGCAGAAGCTGGAGCCGGTGAACGCCGCCTCCTTCGGCAAACTGATCCGCTCTGTGTTCATGGGCCTGCGCACCCGCCGGCTGGGCACCCGgggGAACTCTAAGTATCATTACTATGGGCTGCGGATCAAGGCCAGCTCCCCCCTGCTGAGACTCATGGAGGACCAACAGCACCTGGCCATGAGACAGCAGCCCTTCTCCCAGAAACAGAgGCTGAAGCCGGTCCAGAAGGTGGAGGGGATGTCCAATGGGATGGCGCTGGGGCAGCAGCAGGGGGCGGGGCTCTCTGACATCAGTGCCCAAGTGCAGCAATACCAGCAGTTCCTGGaTGCCTCCCGCGCTCTGCCCGAGTTCCCTGAGGTGGATCTGCAGGCGACAGCACGAGCAGCGAGGGAGCCAGTCTCCcaGCACGACGAGTCGGAGAAGCGCCTCCCGCAGCGCAGTCTGGTCCTGCTGTGCAAATACGAGCCGGTGCTGCAGTGGAGCCGCCACTGCGACAACACGCTGTACCAGGGCCTGGTGGAGATCCTCATCCCGGACGTGCTGCGGCCCATCCCCAGTGACGTCAGCGAGTGCGTTTGCACAGACGCTGCGCAGGACTTCAAGCTGACGCTGCAGCAGCAGAACTCCCTGGAGCAGTGGGCGTCCTGGCTGGACGGGGTGGTCAGCAGCGTCCTGAAGCCCCACCAGGCCAGCCCGGCCTTCCCCCGTGCAGCCAAGCTGTTCCTGCTCAAGTGGAGCTTTTACAGCTCCATGGTGATCCGGGACCTGACCCTGCGCAGCGCCGCCAGCTTCGGCTCCTTCCACCTGATCCGCCTGCTGTACGACGAGTACATGTACTACCTGATCGAGCAGCGCGTGGCACAGGCGCGCGGAGAGACACCCATCGCCGTCATGGGGGAGtTTGCCAGCCTGGGCAGGAGTCTGAACACACTGGACCCTGACAAAGaggaggacgaggaggaggaggaggagagcgacGAAGACTGCCCTCAGGAGCTGTCTCTGGCCACGGACGGGGGGCTGAGCGACTCGCTGGAGCCGCCGGCCAAGCTGGCACGCACCGACGCCCGGGCACTGTTCACCACAGCAGCCTCGGACAACtgagacaacacacacaccggCCCGACGcacccacactgacacacccacaCCCTCGACACAGTGACCACCtcacactgacgcacacactgacacacacacactggccacTGATTGGCcacactgaactgaactgcCCTGTCAATCACAAAGCCACGGATAACAGACCACCAATCACAGCCTGCAGCAGGACGGCCTCGACTCCAGCGCCCGCCCGCCCATCACAGGCCGTCCAATCACAGATGAGCTGGACCGGGCTGTCAGTCGCTGGCCCAGCCCCGTTCTTGTtccttttcctctctccctccgtctctctctctctccccccctctgttgttcagttgttgtttttgttgctgtaatgagatttaaagtttgttttgcGTCGCCTGCCTTCGTCTCGTCACGCGTGTGTGCGTGGGAGTTGTGagaggtgtatgtgtgtgagtagGGTGtaactgcccccccacccccattgtGCCCCCCATCTCTTctggtgttgtgtgtctgtcagtatTGAGTTTTTCTgccaaaatgttaatatatcaGATGAGCTGTGTTCACCAGACCCCGCCTCACCGCACagctcacacactcacactgcccCAGAGACGCACACAAGACCCCGTCCCAGTCAGAGGCTGAACCCTCAGCCGTCGCGTCTCTAGTTCTGGTCCCTGGCGGCGCCGGGTCAGGCCCGTCCTGTGAACACAGCTCAGACAGCGTGCCTGGGGGGGCAGTCTAGCGTGGGaggcaattttgttttaatttttaaagaagttctataaataaattaaagagttTTTAAAGGTG

Function

symbol description
rfx1a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Orthologous to human RFX1 (regulatory factor X1).
rfx1 Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm.

NR:

description
PREDICTED: MHC class II regulatory factor RFX1-like isoform X2

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00008403 True 2724 mRNA 0.64 16 609033 629437

Neighbor

gene id symbol gene type direction distance location
AMCG00008402 NA coding upstream 67989 540113 ~ 541044 (+)
AMCG00008395 NA coding upstream 99176 506943 ~ 509857 (+)
AMCG00008396 NA coding upstream 102576 494240 ~ 506457 (+)
AMCG00008391 NA coding upstream 181688 425827 ~ 427345 (+)
AMCG00008390 evi5l,LOC108428244,LOC103150094,LOC106922548,LOC108258486 coding upstream 194101 389608 ~ 414932 (+)
AMCG00008410 NA coding downstream 79811 709248 ~ 712619 (+)
AMCG00008412 NA coding downstream 86658 716095 ~ 719874 (+)
AMCG00008411 NA coding downstream 145954 775391 ~ 778431 (+)
AMCG00008418 atp13a1 coding downstream 155989 785426 ~ 799063 (+)
AMCG00008417 NA coding downstream 177322 806759 ~ 813360 (+)
G48830 NA non-coding upstream 54773 552467 ~ 554260 (+)
G48818 NA non-coding upstream 119167 488625 ~ 489866 (+)
G48796 NA non-coding upstream 120449 427881 ~ 488584 (+)
G48806 NA non-coding upstream 150734 456649 ~ 458299 (+)
G48803 NA non-coding upstream 164396 438983 ~ 444637 (+)
G48915 NA non-coding downstream 447 629884 ~ 632393 (+)
G48921 NA non-coding downstream 11439 640876 ~ 691037 (+)
G48947 NA non-coding downstream 65031 694468 ~ 696113 (+)
G48961 NA non-coding downstream 119161 748598 ~ 750602 (+)
G48996 NA non-coding downstream 136434 765871 ~ 783981 (+)
G48846 NA other upstream 20587 587280 ~ 588446 (+)
G48811 NA other upstream 57127 473745 ~ 551906 (+)
AMCG00008397 ccdc130 other upstream 83708 517499 ~ 525325 (+)
AMCG00008376 NA other upstream 346011 260274 ~ 263022 (+)
AMCG00008375 cacna1a other upstream 404638 153189 ~ 204395 (+)
G49013 NA other downstream 247117 876554 ~ 879513 (+)
AMCG00008423 NA other downstream 336401 965838 ~ 968583 (+)
G49208 NA other downstream 693374 1322811 ~ 1324269 (+)
AMCG00008451 ubl5 other downstream 995857 1625294 ~ 1628333 (+)
G49298 s1pr2,LOC106601285,LOC107672500,LOC107711272,LOC107587933 other downstream 1301217 1930654 ~ 1936502 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000302_01165866_01178482 NA coding CI01000302 null 1165027 ~ 1178482 (-)