six1b (six1b,six1,LOC108257556,LOC107697302,LOC107589069,LOC107563694)


Basic Information

Item Value
gene id six1b
gene name six1b,six1,LOC108257556,LOC107697302,LOC107589069,LOC107563694
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047613.1
NCBI id CM018559.1
chromosome length 22090854
location 7636185 ~ 7639104 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026944579.2
CTCTTGCTTTAGCGCTGTTCGGATAGGGCGCATGGAGAGCCAATCAGCGCGCGCGCTGCGCTCTTTTAGCGCGACACCACTGGACGGGGAGCACAGCGTCTCCAACCAACGTCCAAAACTTAGGAGCTTGTTGACACGGACATCTCCAACCAAGACATTTTGTAGAACCTTTTcgaaaaaacatttcattagcACTATCAGCACTATCgcatcaggattcaaaccccaTTCCGCTCTTTTCTGCAGTCCAAAAGCAGAGCGGTTTGGCCGTCAGGAGTAACGCGCCCACCGTCGTCCGTCATGTCCATGTTGCCCTCGTTCGGCTTCACGCAGGAGCAGGTCGCGTGCGTGTGCGAGGTGCTGCAGCAGGGCGGGAACCTCGAGCGACTGGGCCGCTTCCTGTGGTCCCTGCCGGCCTGCGACCACCTCCACAAGAATGAGAGTGTGCTCAAGGCCAAAGCTGTAGTGGCGTTCCACCGCGGCAACTTTAGGGAGCTGTACAAAATCCTGGAGAGCCACCAGTTTTCGCCGCACAACCACCCCAAGCTGCAGCAGCTGTGGCTGAAAGCCCACTACATCGAGGCCGAAAAGCTGAGGGGGCGGCCGCTGGGCGCTGTGGGTAAATACCGAGTACGGAGGAAGTTTCCTTTACCGCGCACCATATGGGACGGAGAGGAGACCAGCTACTGTTTCAAAGAGAAGAGCCGCGGCGTGCTGAGGGAGTGGTACACGCACAACCCATATCCCTCTCCACGAGAAAAGAGAGAGCTGGCTGAAGCCACAGGGCTCACCACCACACAAGTGAGCAACTGGTTTAAAAACAGGAGACAGAGGGATCGAGCCGCTGAGGCCAAAGAAAGAGAGAACAGTGAGAACAGCAACGCAGGCGCGAACAAACAGAACCAGCTGTCTCCGCTGGACGGCGGCAAGTCGCTGATGTCCAGCTCAGAAGAGGACGAGTTCTCTCCTCCACAGAGTCCCGAGCAGAACCCGGCTCTCCTGCTGCAGGCCAACATGAGCCACCCCGCCTCCTCCTACAGCATGAGCGGCCTGGCCATGCAGAGCCACCCGCACCAGCACCAGCTCCACGACTCCATACTGGGACCTCTGACCTCCAGCCTGGTGGACCTGGGCTCTTAAGCCATTAAGACtgaaattctatttattttttgttgttttattttgtacgGATCAATAGAGCGAGCTATTCTGCCCctttactgtagatataaaCCTCGAACGGTATAATGTGAACACCAGAAATCTGTAGGTTTTTATCCTGGTAAAGTTTCACAGTAGGTTTATACCGCAGTAGCAGGCTGATAGCCGCATGGACTGACATTTGCCAAGTCGTTAAACTGGACAGAGGACAAAAccaaaatcagtaaataaaaccAGTCTTCATCACTCTCA

Function

symbol description
six1b Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including muscle organ development; nervous system development; and regulation of skeletal muscle cell proliferation. Predicted to be located in cytoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in several structures, including ectoderm; musculature system; nervous system; pharyngeal arch; and trunk. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 23; branchiootorenal syndrome; and nephroblastoma. Orthologous to human SIX1 (SIX homeobox 1).
six1 Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II and protein localization to nucleus. Located in nucleolus and nucleoplasm. Implicated in autosomal dominant nonsyndromic deafness 23; branchiootorenal syndrome; and nephroblastoma. Biomarker of breast cancer; hepatocellular carcinoma; nephroblastoma; neurilemmoma; and ovarian carcinoma.

NR:

description
homeobox protein six1b

GO:

id name namespace
GO:0051146 striated muscle cell differentiation biological_process
GO:0043282 pharyngeal muscle development biological_process
GO:0006915 apoptotic process biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0002074 extraocular skeletal muscle development biological_process
GO:0048839 inner ear development biological_process
GO:0021984 adenohypophysis development biological_process
GO:0048935 peripheral nervous system neuron development biological_process
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function

KEGG:

id description
K15614 SIX1; homeobox protein SIX1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026944579.2 True 1413 mRNA 0.54 2 7636185 7639104

Neighbor

gene id symbol gene type direction distance location
six4b LOC108258176,LOC108434989 coding upstream 6263 7623221 ~ 7629922 (+)
trnac-gca_25 NA coding upstream 46746 7589368 ~ 7589439 (+)
rhoj rhoj,LOC108257930,LOC107707080,LOC107743974,LOC107701469,LOC107697308 coding upstream 133747 7478282 ~ 7502438 (+)
chrna2b chrna2b,LOC108257653,LOC108434998,LOC106571024,LOC103363535,LOC102297948,LOC105897726 coding upstream 279271 7348155 ~ 7356914 (+)
si:ch211-142k18.1 LOC108257612 coding upstream 291270 7339079 ~ 7344915 (+)
rtn1b rtn1b,LOC108257846,LOC105897731,LOC108434986,LOC107589072,LOC107560379 coding downstream 85202 7724306 ~ 7767694 (+)
rd3l LOC108257848 coding downstream 135388 7774492 ~ 7776361 (+)
ppp1r13bb ppp1r13b,LOC108434983 coding downstream 146318 7785422 ~ 7832026 (+)
trnaa-cgc_5 NA coding downstream 244114 7883218 ~ 7883289 (+)
trnaa-cgc_6 NA coding downstream 245541 7884645 ~ 7884716 (+)
LOC113545343 NA non-coding upstream 21205 7610487 ~ 7614980 (+)
G291434 NA non-coding upstream 114062 7521924 ~ 7522123 (+)
G291423 NA non-coding upstream 115327 7489308 ~ 7520858 (+)
G291380 NA non-coding upstream 231080 7404428 ~ 7405105 (+)
G291300 NA non-coding upstream 374074 7261050 ~ 7262111 (+)
G291581 NA non-coding downstream 26025 7665129 ~ 7666009 (+)
G291582 six6b,six6,LOC108257662,LOC107743981,LOC107697293,LOC107589092,LOC103035477 non-coding downstream 27815 7666919 ~ 7667805 (+)
G291644 NA non-coding downstream 194226 7833330 ~ 7837080 (+)
LOC117599748 NA non-coding downstream 306848 7945952 ~ 7948031 (+)
G291769 NA non-coding downstream 486917 8126021 ~ 8127898 (+)
tdh tdh,LOC107561940,LOC103024478,LOC108435012,LOC107723287 other upstream 616499 7012742 ~ 7019686 (+)
b4galt6 b4galt6,LOC107712262,LOC107687169,LOC107712895 other upstream 1476145 6135920 ~ 6160040 (+)
usp24 usp24 other upstream 1834492 5735473 ~ 5801693 (+)
dnm3a dnm3,dnm3a other upstream 2656785 4941951 ~ 4979400 (+)
LOC113545190 NA other upstream 3026584 4601055 ~ 4609601 (+)
atp5mpl NA other downstream 138493 7777597 ~ 7782008 (+)
nudt14 nudt14,LOC107718404,LOC107683965 other downstream 404282 8043386 ~ 8074444 (+)
LOC113545369 NA other downstream 849543 8488647 ~ 8534500 (+)
G292216 trmt6 other downstream 1354409 8993513 ~ 8996996 (+)
LOC113545247 plcb1,LOC108258091 other downstream 1434924 9074028 ~ 9179173 (+)

Expression


Co-expression Network