six3a (six3,LOC107733790,LOC107585256)


Basic Information

Item Value
gene id six3a
gene name six3,LOC107733790,LOC107585256
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 21180935 ~ 21183818 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026943202.2
CACGCTTGACAGTGATTGGCAGGGCTGCCATGACAACCCCACAACGACACCAAGAAAACCAATAGAAAAGCgaaacaaaatatttcaatgCTACACTCACGCGTGGATTTTTAGGGGGAGATATTATGAGGCTGGTGTCATTAGGCGATAGCTATTGAATCATTCAATCTTGCACTCGTCcgttcctcttttttttttctctgctaattttctttctctctcaggtcATTTCCATGGTTTTCAGATCTCCTTTAGAGCTCTATCCCTCCCATTTCTTCCTGCCCAACTTCGCTGATCGGCCCTTGCTCGTGGCGAGCAGCGCGCCCAGCGCCCGCTCTCCAGAAGACTTGTCCATGTTTCAGCTACCGACCCTCAACTTCTCCGCGGAGCAGGTGGCGAGCGTCTGCGAGACGCTTGAGGAGACCGGAGACATCGAGCGACTGGGTCGCTTTCTGTGGTCGCTGCCGGTGGCGCCGGGCGCATGCGAGGCTATTAACAAACACGAGTCGATCCTGCGCGCCCGTGCTGTGGTCGCCTTCCACACGGGCAACTTCCGCGACCTCTATCATATCCTGGAAAACCACAAGTTCACCAAGGACTCGCACGGCAAGCTGCAGGCCATGTGGCTCGAGGCTCACTACCAGGAGGCCGAGAAGCTGCGGGGGCGCCCGCTCGGACCCGTCGATAAGTACAGAGTGCGCAAGAAGTTTCCGCTGCCCAGAACCATCTGGGACGGCGAACAAAAGACGCACTGTTTCAAGGAACGGACGCGCAGTCTGTTGCGGGAGTGGTACCTGCAGGACCCGTATCCCAACCCGAGCAAGAAACGGGAACTGGCGCAGGCCACTGGACTCACTCCTACACAGGTCGGAAACTGGTTTAAAAACCGGAGGCAAAGAGACAGAGCAGCGGCAGCGAAAAACAGGCTCCAGCACCAAGCCATAGGACAGAACGGCATGCGCTCTCTATCTGAATGCACTCCGCATAGCTCGGCAGAGTCGCCGTGCACCGCCGCCAGTCCCACCACCAGCGTGTCCAGCGTGACGGAGCGCGCCGACATGGCCACCTCCATCCTCTCCGTAACCTCCAGTGACTCCGAATGCGATGTATGATacgcaaaaaaaagagagagagaaatatttgCAGGGAATATGGACCTGAATAAACATTATGAAATATCGAGGAAAACAAAAAGGACCATAattattcagagagagagagaaaaaaaaagaaaaaattataaagCACGTCTTTTTTTTAAGCGCTTTCAACGGGACCCACGCCTTTCCCCTATACCCCCATCACTTGCATGAAATATCGATAG

Function

symbol description
six3 Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and transcription corepressor binding activity. Involved in eye development; forebrain dorsal/ventral pattern formation; and negative regulation of transcription, DNA-templated. Predicted to be part of chromatin and transcription regulator complex. Predicted to be active in nucleus. Implicated in holoprosencephaly and holoprosencephaly 2.

NR:

description
PREDICTED: homeobox protein SIX3

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007420 brain development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function

KEGG:

id description
K19473 SIX3_6, OPTIX; homeobox protein SIX3/6

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026943202.2 True 1324 mRNA 0.53 2 21180935 21183818

Neighbor

gene id symbol gene type direction distance location
slc3a1 slc3a1,LOC107585281,LOC107579201 coding upstream 170345 21002369 ~ 21010590 (+)
trnae-cuc_10 NA coding upstream 175416 21005450 ~ 21005519 (+)
ppm1ba ppm1b,LOC107733761,LOC107585253,LOC107698745,LOC107747533,LOC107666482 coding upstream 184557 20986889 ~ 20996378 (+)
abcg8 abcg8,LOC107666472 coding upstream 295223 20877886 ~ 20885712 (+)
cep170aa cep170 coding upstream 325233 20802370 ~ 20855702 (+)
socs5b LOC108263298,LOC108422458,LOC107727375 coding downstream 296881 21480699 ~ 21501499 (+)
prop1 LOC108263276 coding downstream 333968 21517786 ~ 21522535 (+)
ttc7a ttc7a,LOC107586483,LOC107699274 coding downstream 347453 21531271 ~ 21560099 (+)
epcam NA coding downstream 422567 21606385 ~ 21609142 (+)
thada thada,LOC104958480 coding downstream 461918 21645736 ~ 21731864 (+)
G50284 NA non-coding upstream 1124 21179606 ~ 21179811 (+)
G50145 NA non-coding upstream 137401 20963262 ~ 21043534 (+)
G50140 NA non-coding upstream 229944 20950570 ~ 20950991 (+)
G49857 NA non-coding upstream 464638 20619938 ~ 20716297 (+)
G49864 NA non-coding upstream 591705 20585604 ~ 20589230 (+)
G50297 NA non-coding downstream 14459 21198277 ~ 21198508 (+)
G50310 six2,six2a,LOC107666385,LOC107602488,LOC107602487 non-coding downstream 22576 21206394 ~ 21210115 (+)
G50311 NA non-coding downstream 27019 21210837 ~ 21213946 (+)
G50384 NA non-coding downstream 129386 21313204 ~ 21350033 (+)
G50528 NA non-coding downstream 332464 21516282 ~ 21517755 (+)
camkmt camkmt,si:ch73-54n14.2,LOC107602502,LOC107666367,LOC107711417 other upstream 61971 21025733 ~ 21118964 (+)
G49862 NA other upstream 605456 20574973 ~ 20575479 (+)
pprc1 LOC108263826,LOC108421584 other upstream 788334 20382346 ~ 20392601 (+)
sfxn5a sfxn5,sfxn5a,LOC108262907,LOC107567846,LOC107733701,LOC107690191 other upstream 1824837 19341350 ~ 19356098 (+)
LOC113539574 htra2,LOC108263241,LOC108441752,LOC107582530,LOC107690150,LOC107733689,LOC105899646,LOC106589831 other upstream 1918847 19256064 ~ 19262088 (+)
wu:fj16a03 NA other downstream 836504 22020322 ~ 22023811 (+)
LOC113538739 qki,LOC107696379,LOC107559772,LOC106605787,LOC107739475 other downstream 1301492 22485310 ~ 22552752 (+)
G51271 znf318 other downstream 1600510 22784328 ~ 22786505 (+)
LOC113540861 LOC108263311 other downstream 1727326 22911144 ~ 22913552 (+)
G51562 NA other downstream 2270610 23454428 ~ 23455549 (+)

Expression


Co-expression Network