XLOC_010223 (smg5)


Basic Information

Item Value
gene id XLOC_010223
gene name smg5
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 45693413 ~ 45734213 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00020230
GGGAGGGGAAAAAATGGCCGCTCGCGGCAGAGCGACACTCGCAATGATGAGCGACAACAACACAAACATAACCCTCTCAAAATGTGACAGCTGACCCGAACCGACACCAGCACACACGCCGGCTTCCGAACGGATGGGTATCGCGGCCGGTGGCGGTGGAGGCCAGGAACGACAGCGTTTGTGTTTCCGTTGTAATTTGAAGGAAATAAGTGAGTTAGCTATCCTGCTAACGTTAGCCGCGCGCTAAACTGGAGCTGAACGAATCAGAACCAGAACAAGATACACGAAAACAGAGCACAGGAGCTGCATTATCACTGCTAACATGAGCGGACCGAGTCAGGACAGCGAGCCGGAGGCCAAAGTGCTTCATATTAAACGGCTGTACAGGGCTGTGGTGGAAACGGTGCATAAGTTGGACATTATAATCAGCGGCAAGTCGTCGTACAGGGAGGTCTTTAAACCTGAGAACATCAGCTTGAGGAACAAATTGCGAGAACTTTGCGTAAAGCTGATGTTCCTGCATCCTGTGGATTATGGACGCAAGGCAGAAGAGCTGCTGTGGAGGAAAGTCTACTATGAGGTCATTCAGGTGATCAAGACCAACAAGAAGCATATTCACAGCCGCAGTGCTCTGGAGTGTGCCTACAGGACGCATCTGATTGCCGGGGTGGGCTTTTTTCAACACCTGCTGCTCTACATCCAGTCACACTATCAGCTGGAGTTACAGGACTGCATAGACTGGACACATGTCACCGACCCGCTCATCGGTCGTAAGAAACCAGTCTCAGCCACCTCTAAAGAGATGGAATGGGCCCAGATGGCGTGTCACAGATGCCTTGTGTACTTGGGAGATCTCGCGCGCTACCAGAATGAACTGGCGGGAGTGGAGGCCGAGCAGCTGGCGGAGCGTTTCTATCACCAGGCCCTGTCTGTCGCACCTCACGTCGGCATGCCGTTTAATCAGTTGGGTACGCTTGCCGGAAGTAAATTTTATAATGTGGAGGCTACTTACTACTACTTGCGCTGTATTCAGTCAGAGACTCCCTTCGACGGTGCGTATGGGAATTTAAAGCGTCTGTTTGACAAGGCATCCAAGATGTACCACCAGGTGAAGAAACAAGAAATGAAGAAGCTTTCACCATCTCGACAGAGGTCAAAAGACATCAAAAGACTGCTGGTGAGCTTCATGTATTTGCAGAGCCTGTTACAGCCCAAGAACAGTCTGATGGAGACGGAGCTGACGTCGCTGTGCCAGTCTGTGCTGGAAGACTTTAACCTGGTGCTTTTCTACCTGCCTCTTCCTGCTCATGGCAGCCAGTCGGCCAGCGAGGAGGAGGAAGAGCACGACTCTGTTGGTTCTGTGCTTCCAGACAGCCTTATTTTCAAGATGGTGGTGATTTGTCTGATGGTGGTGCACAGCCTGAAGCGAGGGGCTTCAAAGCAGTACAGCGCCTCCATCGCTTTCACATTGGCGCTGTTCTCCCATCTGGTCAATCATGTCAACATTCGACTGCAAGCTGAATTGGAGGAGGGAGAGAGTGATGTCCCAGCCCTGCGCACCGATAACACTGATGACGCTGATGCCAGAGATCACAGTAGTGCTGCTCTCTCAGAGGAGCGAACCCTGCAGAACGGCTCTCTGGAGGAGGATgacgatgaagaggaggaggaaaaggAGAACGGGGAAGACGAGCCTAAAGGCAACGGAAGAACTGTGGCGACAAAGAAAAACCAGGAGAAGAAGAGATCAGCCGAGGAGAAGCAAAAACAGAAGCGGAAGTTCTCAAGGCTCTCCATGCTTCGCCGAAGACGCTGTGCTCACAAGGAGGATGAGAGCGACCTGAGTGAGGGCTTTGAGAgcgatgaagaggaggaggaggaggaggaaggtgGTGGCGGTGGTCTGGTTGATGGTCTGGGAGCCCCCAGGGTCCAGATGAACTCTTTAGGAAGAGACACACGGAAGGGGCCACTGCCGGAGGACGGCGGCTGGGAAAGCGGTTCAGAGGAGGATGAGGGTGGCACGGCTTTTGACGTGGAGACAGACTCTGACATGAACAGTCAGGAATCGCGATCGGATCTGGAAGACATGGAGGATGCTGAAAATGCACCACAACAGCCACAACAAGAGGAAAATGAGCAGCCGCAAACGTCTAGAGAGGAAAACGCCACCCCTCCAGTAACCAATGGGCCGTCTGTGTCTAATGATGCCAGTATCAGCAGTAACCTGCAGGCCATGTCCTCGCAGCTTTTCCAGGCCAAACGCTGCTTCCGGCTCGCCCCTACATTCAGCAATGTGCTGCTCCGCCCTGCAACTACCACTCCCCCTGCCCCAGAATCAAACCCCGCCCCAGTCCAAGAAATCACACCCCCTACTGGAGAAACGCCAAGAAACACGAGTCCAGAGATTGCAAACGGAACCAATGATAAGGATCCTGACTCTAATTCTGAGGGCAGCGAACACAGCAACCATTCGTTTCACAGTGAGAAAACTCTTTCTGAGCGACTGGAGATTCTGACCAATCAGGGTCTTATTCAGGTGGTGAAGGTGTTTTTGGATTGGCTGAGGACGAACACAGACATCATCCTAATGTGTGCTCAGAGTTCTCAAAGCTTGTGGAACAGGCTGTCAGTGCTGCTTAATTTACTTCCCGAGGGAAGCAAGATCTTAGaaacagATATAGGTCTGAATAAGGATGTAACGGAGCTTCTAAGTGAGTGTGAGCACCCTAGTTTGGCCCAGACGTTGTTGTTACCTGAAGATATGGCTCTCCGTCATCTTCCTGCCCTCAGCATAGCCCATCGACGCCTGGACTTCACTAGCCAGAGACCCCCTCTTACCCCCCTGGATGAGTGTGTGGTGCGCGTGTGCTGTATTCGCAGCTTCGGTCACTTCCTCACTAATCTCCAAGGCAACGTGCTACACTTCAACCCGGAGGCGGGCATCTTCacaagcatcagccaatcagaacaggaCAACCTGGTTCAGCAGGCCAAGGCCCAATTCCGCATGGCGGAGGAGGAAGCTCGCAGAAACCGGCTCATGAGAGACATGGCCCAGCTGCGCCTGCAGTTGGAGGTTTCTCAGCTGGAGGGCAGTCTGCAGCAGCCTAAAGCCCAGTCCTCCATGTCTCCTTATCTGGTGCCAGATACTGCTGTCCTCTGCCAGCACCTGGGGCTGCTCAGACAGCTGGCTGCCAGCGGatgcttcatcatcatcatccctcGCACAGTGATTGACGGTCTGGACATGCTGAAGAAAGAGAACTCTGGCGCAAGAGATGGCATCCGGTTCCTTGAGACAGAGTTTCGGAAAGGGAATAGGTACATCCGCTGTCAGAAAGAGTCAGGAAGAAGCTTTGAGAGGGACAAACTAAAACGTCAGGACACAGAAGCCTGGCACCTATATAAGATGGTGGACAGCTGTCGTCAGCTGACGGGATCTCAGAGCAGTGGAGATGAAGACACCGCCGGCATGGTCACCATTCTCACTGGACACTCATTAGAGGAGCTGAGTGAAAGATCGGCTTCCATGAAGGCGGCTGTCCAGGCGGTAGCAGCAGCAGGCATGGAGCTAAAAAACATCATCGAATTTTACCGGCAATGGAAAGAGATGGGCTGAGAAACGGTGCGGGACGCAGGGGGTGGACTCGGCATTCGCTGATCGCACACTCACTCCCCCtcactctctctatctctctcgctctctctctctcccactttgctGCTCTGTCTGTATATGTGTctccaagacaaaaaaaaaa

Function

symbol description
smg5 Predicted to enable telomerase RNA binding activity and telomeric DNA binding activity. Acts upstream of or within chordate embryonic development. Predicted to be located in cytoplasm. Predicted to be part of telomerase holoenzyme complex. Orthologous to human SMG5 (SMG5 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: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-050913-144 Predicted to enable telomerase RNA binding activity and telomeric DNA binding activity. Acts upstream of or within chordate embryonic development. Predicted to be located in cytoplasm. Predicted to be part of telomerase holoenzyme complex. Orthologous to human SMG5 (SMG5 nonsense mediated mRNA decay factor).

Ensembl:

ensembl_id ENSDARG00000041481

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00020230 True 3764 mRNA 0.53 22 45693413 45734213

Neighbor

gene id symbol gene type direction distance location
XLOC_010220 NA coding upstream 2193 45455980 ~ 45691220 (+)
XLOC_010222 CU459129.1 coding upstream 26561 45666735 ~ 45666852 (+)
XLOC_010221 CU062666.1 coding upstream 105083 45588214 ~ 45588330 (+)
XLOC_010219 phf1 coding upstream 249608 45424907 ~ 45443805 (+)
XLOC_010218 dnase2 coding upstream 335895 45337663 ~ 45357518 (+)
XLOC_010224 paqr6 coding downstream 4980 45739193 ~ 45782607 (+)
XLOC_010225 NA coding downstream 52829 45787042 ~ 45812324 (+)
XLOC_010226 rbm8a coding downstream 187962 45922175 ~ 45930077 (+)
XLOC_010227 otud7b coding downstream 196749 45930962 ~ 45982657 (+)
XLOC_010228 NA coding downstream 254218 45988431 ~ 45990842 (+)
XLOC_010217 FP016247.1 non-coding upstream 419694 45217307 ~ 45273719 (+)
XLOC_010216 FP085399.1 non-coding upstream 487177 45203090 ~ 45206236 (+)
XLOC_010232 NA non-coding downstream 535511 46269724 ~ 46270888 (+)
XLOC_010233 NA non-coding downstream 542731 46276944 ~ 46282156 (+)
XLOC_010240 NA non-coding downstream 821181 46555394 ~ 46569152 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000027_01610574_01630928 SMG5 coding CI01000027 null 1610441 ~ 1630928 (-)
bowfin (Amia calva) AMCG00012507 smg5 coding CM030138.1 CM030138.1 20168155 ~ 20178964 (-)