XLOC_002921 (smg6)


Basic Information

Item Value
gene id XLOC_002921
gene name smg6
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 35584647 ~ 35613752 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00005405
ATGGCGGACGAACTGGAAAGGGTCCGAATTTCAGCTGCGGAGCTGCGAGCACAAGCGTCGAGTTTCAACATACACGGCGATGATGTGAAAGACTTGCGAGAGGAGGGTAAGAAGCAACGTCAGCGAGACAGTAAACGCCCAGATTTGCAGTTGTACAAGCCTGGGGTTGGCCATCCAAACAGGCGTATGGACAGTGTAGAAGGAGCCGGTTCAGATACTTTGATTCAACCCGATGGTTTTGGTAATGACCCCAAAATGTCAGACGAGTCTCCTACTAGTCCTGGATGCTCTTACATGCCTGGCACAGGCAATGAAGACTATCTAAATGACCACAGTAAACCAGAAACCAATCATAAAACTGATGGACATATAGGTGGTGATAAACACAAACTAGTGGATGAAAATGCTGTTAAAATCATTGAAAGAGCTGGTACGCCCAAATCCCCGAAGCAGTCACGAAAAATGCGCAAACCTGATCGTCAGATATATCAACCAGGCGGGAGAAGATCTCAGGGAAACAAAGAGGTCGGGGCAAGCAAAGAATTAGACAGGGATCGAAGTAGAGAGGAAGAAGTGGATGGGAAATCTATTGAAACACCATTAAAGTGTGAGAAAGAGGAAAAGCGTAAAAACAGGCGAGGTAAAAATGACCGGAAAAAGCAAGCAAGTGTAGAAACTCCCTCTGCAAACAAAACTGAGAACGCTGTTGAGAATATCAGCAATAAAGTCAGCAATCTTCATTTAGAGACTGTGGAAAGTAAAGACAGAGATAGGCAGGATGATACAAACCAGATTAAACATTCTGAAGAAGGCCGAAAAATCCAGACAGGAGGAGCAAATCGAGGAATGGGAGAAGACAAAAAAAAGGAGAGAGGTAATGGGAAATCCAGACCTGGAAAAGAGAAAGGTAACAATCAGGTTTTTGACAAGAAAGAGGAAGGGGAGGCAGGGGGAAAAGCCTCAGAAGCCCCTCATCTTGAAGGAAGAAAGCAGAGAAATTTCGGAGCCAAAGAGGCAAGTCGTGACCAGAATTTGAACCACGAAAAACAACAAGGGAACCGGCCAAAAGAGAAAGGAAAACCATCTGAGCGAACTGATTCAAAGCGAGTTAACGCTGCTTCAAAGCGATACTCTCAATCAGACATCCGGCGGCCTCGAAACCGCACCTACAGCACCAGTTCGGCCAGTAGCGGGACCAGTATGGATGGTCTTGCTGAAGCCGAGAGATTGAAAGCAGAAGGTCAGCAGTTTTCTGCACGCACTTTAGAGAGAGCCACGGGACAGAGGGAGTTCGTCCGAGGAGGTCAAACCCGCTCCAGGAGACGCACGGCCCGTACCTTGTCTTCCACAGATTCGCTCGAGGAAAACGAGGTGTGGGAGCGAGAAGGCAGAAGAAGCAGAGCTGCTGAAGAAGCCAAGAGCAGCACTCGGAAGGAAGGAGGGATCTTAAGAGTGTCTTTAGACAAGCGTGAGGAGCAAGCAAGCCGTAAAAGCACTAGAGGTCGTGGTAGAGGCATCCTGGTGCTTCCTGCCCACACCGACCTAACACAGACCCCTGATCCTGCACCTCCACTTGGAGGAATGAGAGGAGGAATGGGCCTGGGCAGAGGAAGAGGCGGCCGTGGAGGAGGGACCAGACGTCTGTGGGACCCAAATAACCCAGATAAGAAACCAGCACTGGTGTCAAGCCAACAATCCCAGCATGCATCTCAACACCAGGCTTTGTATTTACAGCAGGGTGGATGTGGGCCGCTACACTTTCTTGACACTGATGACGAAACCGTAGGAAGTCCGCCAGTCCGCCAGGGGGAGTTCTTTCAAAATCAGCAGGCTGCAGCTATGGCGTACTACAAGTTCCAGAATTCGGACAATCCCTACTGCTATCCTGTGTCAGCCAATTCCCCAAACACCCCGCCAAGATATCCATACCCGTATCAGATTCCCTACCAAATACCAGGCTCTAATGGGATGTATCCCGCCTCTGCTATGACATCTTTTTATGGACCCTACGGACAGGGTGGGCCAGGTTACCCTTCTCCGACGGTATCTGCTTTGACTCCAGAGGAGGCGGAGGTGCAGACCAGAGGAGAGCTGGGGAAGTTTCTTCGGCTGGCTGACAGTCAGGAACTCCAGCTCAGTAACTTGCTGTCGCGTGAACGTCTGAGCCAGGAGGGCCTGGAGAGGATGGCCCAGCTCAGGGCTGAGCTCCTGACAATATACGAGCGGGTGATTTTGACAGACATTGAGTTCTCTGACTCTCAGAACGTGGATCAGACTCTATGGAAGAATGTGTTTTACCAGGTGATAGAGAGGTTCAGGCAGCTGCTGAAGGATCAAAACTCAGACACAGCCCCACAGATTAAAACCATGCTAATGACCATTCTGGAAGAgGGGGCAGTATTCTTTGATTCGCTGCTGCAGAAGTTGCAGTCTGTGTTTCAGTTCAAGCTGCAGGACTATATGGACTGCATGGCTATACGAGCAAGACCTCTGCGCAAGACGGTGAAGTATGCTCTGATCAGTGCTCAGCGCTGCATGATCTGCCAAGGGGATATCGCACGGTATCGAGAACAGGCTAGTGAATCCGCTAACTACGGGAAGGCACGCAGTTGGTATCTAAAAGCTCAACAGATTGCTCCAAAAAATGGACGGCCCTACAACCAGCTGGCCCTGTTAGCAGTGTACACGAAGCGAAAGCTGGATGCTGTATACTATTACATGCGCAGTCTTGCTGCCAGTAATCCGATCCTTACAGCCAAGGAGAGTCTGATGAGTCTGTTTGAGGAAGCCAAACGCAAGGCTGACCAAGTAGAGCGTAGGCTAAAGCAGGATTCAGATGGAAGTGCTCATGGTCCTAAAGGCCACACTGGTGGGCGCCGAGGTGAAGATGCAGCCCGCGTTGAGATCTGGATCCGTCCAAGCGAGGTTTCAGGCACGTCTCGTCCAACGGGCAGTGAGTCGGGAAAAGACTCTGAGCAGGACGGAGAGTTGGGGGCTTTGAGTGCAAGTGAtCTCAATAAGAGATTTATTTTGAGTTTTCTGCACGCTCATGGAAAGCTCTTCACAAAAGTCGGGATGGAGAGTTTCCCTGCTGTAGCCAATCGAGTGTTACTGGAGTTTCGCGCCCTCCTCCAGCATAGCCCCTCCCCCCTCGGGAGCACACGCATGCTGCAGATCATCACCATTAACATGTTCACCATCTATAACGCACAGATCAGAGccaaAGGACAGGGTGAAACTCGGTCTGCATTAGAAGAGCAGGCCATATCTCTGGGTTTAGCTATGTTTGGTCTCCTTGTCCAGCGCTGTACTGAACTCCTGAAGGAAACACCTACTGAGCCGATCCCTGCCGAAGAGCTGGGGGAATTTGATGAGATGGATGATGAGGAAGGGATGGTGCGAGTGTCTGTCTTCCCTCACGACCTCCGAGAGCTGCTGCCTAGCATGAAGGTCTGGTCCGACTGGATGCTCGGACACCCGGAAAAGTGGAACCCTCCTCCATGCAGCATGCAGGGGAGTCCAGACGTGTGGCAGTGTCTTGCGGATTTGTGCAACTCTTTCTCTCGTGTGTATCATGGGGAGGTCCTGCTGTATAAAGCGGATGCAGATGGAGAAGGAGATGAGGAGCTCAGAGTCCTGCAGCTGGAGGAAGACAAAATGCTGTCTGGGTTTGTTCCGCTGCTCGCTGCCCCACAGGACGCCTGCTATACAGACCAGGGAACAGATGCGGCTATAGCCGCTGACTGTAAGCGAGTGACCGTTCTCAAGTACTTCCTGGAAGCTCTGTGTGGGCAGGAAGAGCCTCTGCTGGCTTTCAAAGGAGGAAAATACATTTCCATGGCAGCACCTCTTACACCCAGCATAAACACAGAGAACAAGGCGCAGGAGCAGGAGGATGATGTGATCGTGGAGGAGTCATCTCTGTCTGCGTCAGAAGGAGAGATTGATGGAGAGATGGAGGGAGATGGAAGTGAGGATGATATCAGAGAGCTGAGGGCACGACGCCACGCTTTAGCACACAAGCTGGCACAGCAGCAGAAGCGCAGGGACAAGATACAGGCTGTTCTGCAAACAGGCGGTCAGCTGGAGATCGAGGTCAGACCCTTCTATCTTGTTCCTGACACAAACGGCTTCATTGATCATCTGGAGGGCCTGAGGAAGCTTCTGGCCTGCGGGACGTACATCCTGGTGGTTCCCCTTATTGTGATCACGGAGCTGGACGGTCTGGCTAAAGGACAGGACAGTCGCGAGGGCGTTGGGAACGGTGCTCATGCCCGTCAGGTGCAGGACAGAGCCCGAGCGGCTGTCAtgtttctggagaaagccttCGAGTCCAGAGACCCAAGTATCAGAGCGCTGACCAGCAGAGGAAACACACTGGAGTCTATCGCCTTCCGCAGCGAAGACACGTCTGGACAGAAGGGGAACAACGATGACGTGATCCTGTCCTGCTGTCTGCACTACTGTCAGGACAAAGCCAAGGACTTCATGCCTGCTGAGAGAAATGGTCCGGTGCGGTTGCGTCGTGAGGTGGTCCTGCTCACAGACGACAGAAATCTCCGCGTCAAAGCTCTGACCCGCAACGTTCCCGTCAGAGACATTCCCGCCTTCCTGATCTGGGCTAAAGTAGGCTGAAGCGCAAGCCTGAGCCACCGCTGAGAAACCAGTCATCCTGCGCCACAACAGCCGGAGATGAGCAAACACACAGAGAGGATCAACACACAGGGGAAAGACTGCCAGTCAGTCCAAAAAGTGAGACACACATCAAGCCACTTTTCAAAGAACAAGGATTTTCCCCTTAAACGCAGCGTGCATAGACAACCGCTTACTCCTGAGGGTGAGACGCACACGTAGCTGATTCAAGCGAGAGAACGAGGAAGCAGCGTCGGCTCTTCTGCTGTttggagtgtgtgtgagtgagtgtggcGTCGCGAGCAGGCGGATGCAGTCTGAAGGGCCTGTATTGAGGTGAGTGCTCCAGTAGGGGGCGACAGACAGTCTCATGTTCATCTTTCAGGCCCACAGAGGCTCTGATCTTtgcgtttttattttttcattgccTCGGTGCATGCTTGGTTTGAGCTAAGCATGATTGTTTTAAAGCTCTTTATTTGCGTATTTCAGTTTGCCTTGTGTCAGATTGTTGGTTTTGCGGTTTAATCGCCTCATTTTGTGTCAAGGAATAATTGTGTAATCAATCTGTCGTCACACTAGATGAATCAACTCTGGgggtttttttaataaataaaataacttgacaCGTTGCTCAAAAATCATCACAACATCAATCTTTAGTTCATTTAGTTTGCTGAATATTGAAAACACATGAACAATTTGTGTGCTGTAAACATACAGTCATCGAAATAATCAAGGATAAACAAACAATGGATGCAGTTTGGTAAACATATATTAGGAAAAAAAACACCATGTTATCTTGTTCATAGTTCAACGTCttgaaatatctattttttttttttctgtacaacTCGACTAGTTTGTGTTTTGGCTTTTAGTGTGGTTATTTTCCAGTTATAAAGCTGAATATTGTAGTTGTAATGCCACGTCAGCTTGTTTTAATGGTCAGCCTCAGCTTTCTGTCGTGTGATCAGAAGAGGCCAGCATCTGAAGAATAACAACTCACCTCTGATTACACGTCTTcctcatttgtttttaatgttgtggATTAAATTAATCTGAGTTA

Function

symbol description
smg6 Predicted to enable telomerase RNA binding activity and telomeric DNA binding activity. Acts upstream of or within chordate embryonic development and nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to be located in cytoplasm. Predicted to be part of telomerase holoenzyme complex. Orthologous to human SMG6 (SMG6 nonsense mediated mRNA decay factor).

GO:

id name namespace
GO:0043009 chordate embryonic development biological_process
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay biological_process
GO:0005697 telomerase holoenzyme complex cellular_component
GO:0016740 transferase activity molecular_function
GO:0070034 telomerase RNA binding molecular_function
GO:0042162 telomeric DNA binding molecular_function

KEGG:

id description
ko03015 mRNA surveillance pathway
ko03019 Messenger RNA biogenesis
ko03032 DNA replication proteins

ZFIN:

id description
ZDB-GENE-081107-52 Predicted to enable telomerase RNA binding activity and telomeric DNA binding activity. Acts upstream of or within chordate embryonic development and nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to be located in cytoplasm. Predicted to be part of telomerase holoenzyme complex. Orthologous to human SMG6 (SMG6 nonsense mediated mRNA decay factor).

Ensembl:

ensembl_id ENSDARG00000100481

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00005405 True 5701 mRNA 0.50 19 35584647 35613752

Neighbor

gene id symbol gene type direction distance location
XLOC_002920 si:ch211-244c8.4 coding downstream 42576 35537974 ~ 35542071 (-)
XLOC_002919 NA coding downstream 152992 35429504 ~ 35431655 (-)
XLOC_002918 gabrr3a coding downstream 174129 35367722 ~ 35410518 (-)
XLOC_002917 NA coding downstream 263010 35312892 ~ 35321637 (-)
XLOC_002916 prr11 coding downstream 327086 35250205 ~ 35257561 (-)
XLOC_002922 BX663516.3 coding upstream 6581 35620333 ~ 35620449 (-)
XLOC_002923 NA coding upstream 36832 35650584 ~ 35654680 (-)
XLOC_002924 ovca2 coding upstream 50377 35664129 ~ 35668584 (-)
XLOC_002925 NA coding upstream 198000 35811752 ~ 36093533 (-)
XLOC_002926 BX088524.4 coding upstream 549427 36163179 ~ 36163294 (-)
XLOC_002912 BX465844.1 non-coding downstream 420356 35160010 ~ 35164291 (-)
XLOC_002909 NA non-coding downstream 526203 35054281 ~ 35058444 (-)
XLOC_002906 CT573139.2 non-coding downstream 625469 34951060 ~ 34959178 (-)
XLOC_002939 NA non-coding upstream 851591 36465343 ~ 36469895 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000304_17026143_17041443 NA coding CI01000304 null 17026066 ~ 17041536 (-)