six3a (six3)


Basic Information

Item Value
gene id six3a
gene name six3
gene type coding
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048584.1
NCBI id CM023238.2
chromosome length 46616863
location 28849051 ~ 28852328 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_021576373.2
TTGACAGTGATTGGCAGGGCTGCCATGACAACCTCACAACGACACCAAGAAGACCAATAGAAAAGCGAAACAAAATGTTTCAATGCTACACTCACGGTGGATTTAGGGGGAGATATTATGAGGCTGGTGTCATTATAGGCGATAGCTATTGAATCATACAATCTTTACTCGTCGTTCTTTTTCTTGataattttctttctctctcaggtcATTCCATGGTTTTCAGATCCCCTTTAGAGCTTTATCCCTCCCATTTCTTCCTGCCAAACTTCGCTGAGCGCCCTGTGCTCTTGGCGAGCAGCACTCCCAGCACCAGGTCTCCAGAAGACTTGTCAATGTTTGCGCTACCGACCCTCAACTTCTCTCCGGAGCAAGTGGCGAGCGTCTGCGagacgctggaggaaaccggAGACATTGAACGGCTGGGACGATTCCTGTGGTCCCTGCCGGTGGCACCCGGAGCATGCGAACAGATCAACAAGCATGAGTCGATCCTGCGAGCTCGCGCAGTGGTTGCTTTCCACACGGGGAATTTCCGAGACCTGTACCACATCTTGGAGAACCACAAGTTTACCAAGGATTCCCACGGCAAACTGCAGGCCATGTGGCTGGAGGCACACTACCAGGAGGCCGAAAAGCTGCGCGGTCGCCCCTTAGGACCGGTTGACAAGTACAGGGTACGGAAGAAGTTCCCCCTTCCCAGGACCATCTGGGACGGCGAACAGAAGACGCACTGTTTCAAAGAGAGGACGCGCGGTCTGTTAAGGGAGTGGTACCTTCAGGACCCATATCCAAACCCCAGCAAGAAAAGGGAACTGGCTCAAGCCACTGGACTCACTCCTACACAGGTCGGAAATTGGTTTAAAAACCGGAGGCAACGAGACAGAGCCGCGGCAGCAAAAAACAGGCTTCAGCACCAGGGAATAGGACAGAACGGTATGCGGTCCCTTTCAGAATCCGGGTGCACTCCACGCAGCTCGGCGGAATCGCCGTCGACCGCGGCCAGTCCTACTACCAGCATCTCCAGTATGACAGAGCGAGTTGATACTGGAACGTCCATTCTTTCAGTAACCTCCAGTGACTCCGAGTGTGACGTATGATATAAAAAAAGAGAAATATTTACAGGAAATATGGACCTGAaaaaaaaaactatgaaatatcgggatgaaaaaaggaccaattgatttaaatatttaaaaaaatataaaagcacGTCTTTTTTAAGCGCTTTCAATGGACCCACCAAGCCTTCCCCTACCCCCCACCACTACCTGCATGATGTTTTTTGGTATCTGGGGAACATACCCTGTTCAATATTTCTACAAGGATAATCGAGAAGAGGGAATTACCAGAGGGTGTTTATCGCCTTTTCATCTCTGTTTTAGTCCAAGTGATGATGCCGCTCAGCCAAGATGCAATCCTGTTTTACTTTATGTTCATCAGACAATCATTTACGTCGTAAGCACCTTTTTACTATACACTTCTGTCACTGCCTGTGTGGGGTAGGCCTACATGGTCAAATGTGGAACCCAATCGTTATGACTGtatcagatttttatttttattttaagatTTTATATTGAATTATGTATATCTCAAATAATGCCATCATTCTCCCGCGGTCTGTAATATCCTATATGTGTAGATATGCTTGTACATAATATtgctctcccatctccatcctctTTTCTATCCCTGTTCTTGACTTGGTGTTCCTATACATAAAATATTTGTCAAAACGTAAAAAAAA

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_021576373.2 True 1750 mRNA 0.47 2 28849051 28852328

Neighbor

gene id symbol gene type direction distance location
camkmt camkmt coding upstream 103470 28548493 ~ 28745581 (+)
slc3a1 slc3a1 coding upstream 314463 28525469 ~ 28534588 (+)
ppm1ba ppm1b coding upstream 323958 28478800 ~ 28525093 (+)
abcg8 abcg8 coding upstream 517233 28316489 ~ 28331818 (+)
cep170aa cep170 coding upstream 555363 28225910 ~ 28293688 (+)
LOC110499307 NA coding downstream 39850 28892178 ~ 28936652 (+)
LOC110499309 prkce coding downstream 275411 29127739 ~ 29280630 (+)
LOC110499310 epas1 coding downstream 433557 29285885 ~ 29356101 (+)
trnaa-ugc-146 NA coding downstream 537992 29390320 ~ 29390393 (+)
ankrd1a LOC106589708 coding downstream 571366 29423694 ~ 29428859 (+)
G1681846 NA non-coding upstream 13816 28834917 ~ 28835235 (+)
G1681835 NA non-coding upstream 20171 28828681 ~ 28828880 (+)
G1681820 NA non-coding upstream 40045 28808747 ~ 28809006 (+)
G1681797 NA non-coding upstream 64560 28784274 ~ 28784491 (+)
G1681791 NA non-coding upstream 71451 28777371 ~ 28777600 (+)
G1681870 NA non-coding downstream 3233 28855561 ~ 28855833 (+)
G1681897 NA non-coding downstream 23497 28875825 ~ 28876052 (+)
G1681914 NA non-coding downstream 32344 28884672 ~ 28884968 (+)
G1682002 NA non-coding downstream 98942 28951270 ~ 28951508 (+)
G1682005 NA non-coding downstream 101003 28953331 ~ 28953537 (+)
G1681792 NA other upstream 70642 28778006 ~ 28778409 (+)
G1681180 NA other upstream 122556 28717361 ~ 28726495 (+)
G1680230 NA other upstream 1473232 27375354 ~ 27375819 (+)
G1679823 NA other upstream 1761588 27084426 ~ 27087463 (+)
G1679135 NA other upstream 2073371 26700392 ~ 26775680 (+)
lhcgr lhr other downstream 604900 29437357 ~ 29458499 (+)
LOC110499316 LOC106589729 other downstream 720107 29572397 ~ 29588171 (+)
G1686317 LOC106589755 other downstream 3802026 32654354 ~ 32661648 (+)
LOC118942060 LOC106589768 other downstream 4324965 33177293 ~ 33196167 (+)
G1687675 NA other downstream 5473509 34325837 ~ 34326254 (+)

Expression


Co-expression Network