AMCG00009220 (lsm2,LSM2,smx5)


Basic Information

Item Value
gene id AMCG00009220
gene name lsm2,LSM2,smx5
gene type misc
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030126.1
NCBI id CM030126.1
chromosome length 46242406
location 29171323 ~ 29174731 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00009220
ATGCAGAAGCTGTTCTACTCGTTTTTTAAGTCGTTGGTGGGGAAAGACGTTGTTGTGGAGCTGAAGAATGATTTAAGTATCTGCGGGACGCTCCATTCTGTTGATCAgTACCTGAACATCAAGCTCACCGACATCAGTGTGACCGATCCAGAGAAGTACCCCCACATGCTGTCGGTGAAGAACTGTTTCATCCGTGGCTCTGTCGTGCGGTATGTGCAGCTCCCGGCGGATGAAGTGGACACACAGCTGTTGCAGGATGCGGCGCGCAAGGAGGCCATGCAGCAGAAACAGTGATCCAGCtttgggaggggg
>TU69299
TAATGACGCAGAAATAACGCGCCGTTACGCGATAGAGGCTTTGCTGCTTGAAAATGCTGTTCTACTCGTTTTTTAAGTCGTTGGTGGGGAAAGACGTTGTTGTGGAGCTGAAGAATGATTTAAGTATCTGCGGGACGCTCCATTCTGTTGATCAgTACCTGAACATCAAGCTCACCGACATCAGTGTGACCGATCCAGAGAAGTACCCCCACATGCTGTCGGTGAAGAACTGTTTCATCCGTGGCTCTGTCGTGCGGTATGTGCAGCTCCCGGCGGATGAAGTGGACACACAGCTGTTGCAGGATGCGGCGCGCAAGGAGGCCATGCA

Function

symbol description
smx5 Predicted to contribute to RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of Lsm1-7-Pat1 complex and nucleus. Predicted to be active in P-body. Orthologous to human LSM2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated).
lsm2 Enables small GTPase binding activity. Involved in mRNA splicing, via spliceosome. Acts upstream of or within mRNA catabolic process and spliceosomal tri-snRNP complex assembly. Located in cytoplasm and nucleoplasm. Part of Lsm2-8 complex; U4/U6 x U5 tri-snRNP complex; and spliceosomal complex.

NR:

description
U6 snRNA-associated Sm-like protein LSm2

GO:

id name namespace
GO:0043928 exonucleolytic catabolism of deadenylated mRNA biological_process
GO:0000244 spliceosomal tri-snRNP complex assembly biological_process
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0046540 U4/U6 x U5 tri-snRNP complex cellular_component
GO:0005829 cytosol cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0017070 U6 snRNA binding molecular_function
GO:0019901 protein kinase binding molecular_function

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00009220 False 312 mRNA 0.53 5 29171323 29174731
TU69299 True 328 TUCP 0.52 5 29173139 29174700

Neighbor

gene id symbol gene type direction distance location
AMCG00009214 LOC106599142 coding upstream 69246 29075081 ~ 29102077 (+)
AMCG00009202 NA coding upstream 151431 29014392 ~ 29019892 (+)
AMCG00009206 NA coding upstream 244495 28910313 ~ 28926828 (+)
AMCG00009203 ryk coding upstream 278279 28867586 ~ 28893044 (+)
AMCG00009205 NA coding upstream 334911 28802969 ~ 28836412 (+)
AMCG00009221 NA coding downstream 134125 29308856 ~ 29309773 (+)
AMCG00009218 NA coding downstream 191907 29366638 ~ 29402226 (+)
AMCG00009219 LOC100694679,LOC102204076,LOC108271779,LOC105925372,LOC102787755,LOC102295835,LOC101474685 coding downstream 241705 29416436 ~ 29419290 (+)
AMCG00009225 NA coding downstream 286754 29461485 ~ 29470524 (+)
AMCG00009224 NA coding downstream 309812 29484543 ~ 29487155 (+)
G55394 NA non-coding upstream 139845 29029318 ~ 29031478 (+)
G55357 NA non-coding upstream 272630 28897976 ~ 28898693 (+)
G55308 NA non-coding upstream 537991 28632355 ~ 28633332 (+)
G55300 NA non-coding upstream 541026 28627663 ~ 28630297 (+)
G55257 NA non-coding upstream 706097 28464562 ~ 28465226 (+)
G55461 NA non-coding downstream 10190 29184921 ~ 29185184 (+)
G55463 NA non-coding downstream 11963 29186694 ~ 29187955 (+)
G55487 NA non-coding downstream 283690 29458421 ~ 29458743 (+)
G55512 NA non-coding downstream 466758 29641489 ~ 29641936 (+)
G55564 NA non-coding downstream 683564 29858295 ~ 29932152 (+)
AMCG00009208 NA other upstream 63096 29103608 ~ 29108227 (+)
AMCG00009207 rab6ba,rab6b,LOC107552273,LOC107696768,LOC103151367,LOC106527458,LOC107088682,LOC102207753,LOC107752652 other upstream 159555 28928892 ~ 29011768 (+)
AMCG00009204 NA other upstream 371723 28766454 ~ 28799600 (+)
AMCG00009164 NA other upstream 1545312 27613583 ~ 27626011 (+)
AMCG00009129 NA other upstream 2374555 26793537 ~ 26796768 (+)
G55573 NA other downstream 733180 29907911 ~ 29911564 (+)
G55591 NA other downstream 820395 29995126 ~ 29995438 (+)
G56060 NA other downstream 2987029 32161760 ~ 32165365 (+)
G56368 NA other downstream 4826065 34000796 ~ 34031445 (+)
G56369 NA other downstream 4840939 34015670 ~ 34018815 (+)

Expression


Co-expression Network