smx5 (lsm2,LSM2,smx5)


Basic Information

Item Value
gene id smx5
gene name lsm2,LSM2,smx5
gene type misc
species tiger barb (Puntius tetrazona)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_056704.1
NCBI id CM032073.1
chromosome length 27473687
location 13080565 ~ 13082119 (+)
genome version ASM1883169v1_2021_tiger_barb_Genome

Sequence

>TU66063
ACGAGGTGAAGAACCCGGCCGCTCTCTTTGATGACGTGTATGATCTGAAGCACAAAACCGCGTGAAAATGCTCTTCTACTCGTTCTTCAAGTCACTGGTTGGCAAAGACGTTGTGGTGGAGCTGAAAAATGACTTGAGCATTTGTGGAACATTACACTCAGTTGATCAGTATCTGAATATCAAACTGACAGATATCAGTGTCACTGATCCAGAGAAATATCCACACATGtTGTCGGTAAAGAACTGCTTTATTCGTGGATCAGTAGTGCGATATGTTCAGCTTCCTGCGGATGAAGTGGACACACAGCTGCTACAGGATGCTGCACGCAAAGAAGCTATGCAACAGAAACAATAATTTGAGGATAGTATTTTTGTTGGACTGTTCACAAACGTTATCTGTGGAGCCTtgtagatgtttttgtttttctacctGAAACTTACGTAAAGTTTGGATTCCCCCCCTCTAGATATTCATTGACCTCTGTTGTCATGAGGCCCTTTAACTGGGATGACTTTTGAGTTTGTAGtgatttttgtgcttttaataatgtttggttctgtattgcatccaaaatgttaaaatgttttagttaagTTCTTCGACCTACTATAAAGGAATAAAGTCTCTTCCTCCACCGtc
>XM_043241811.1
CACCAATGGGAGCGTTACGTCTTCATTTGTCTATCCAATAGAAGCACGAGGTGAAGAACCCGGCCGCTCTCTTTGATGACGTGTATGATCTGAAGCACAAAACCGCGTGAAAATGCTCTTCTACTCGTTCTTCAAGTCACTGGTTGGCAAAGACGTTGTGGTGGAGCTGAAAAATGACTTGAGCATTTGTGGAACATTACACTCAGTTGATCAGTATCTGAATATCAAACTGACAGATATCAGTGTCACTGATCCAGAGAAATATCCACACATGtTGTCGGTAAAGAACTGCTTTATTCGTGGATCAGTAGTGCGATATGTTCAGCTTCCTGCGGATGAAGTGGACACACAGCTGCTACAGGATGCTGCACGCAAAGAAGCTATGCAACAGAAACAATAATTTGAGGATAGTATTTTTGTTGGACTGTTCACAAACGTTATCTGTGGAGCCTtgtagatgtttttgtttttctacctGAAACTTACGTAAAGTTTGGATTCCCCCCCTCTAGATATTCATTGACCTCTGTTGTCATGAGGCCCTTTAACTGGGATGACTTTTGAGTTTGTAGtgatttttgtgcttttaataatgtttggttctgtattgcatccaaaatgttaaaatgttttagttaagTTCTTCGACCTACTATAAAGGAATAAAGTCTCTTCCTCCACCGtc

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:

id description
K12621 LSM2; U6 snRNA-associated Sm-like protein LSm2

RNA

RNA id representative length rna type GC content exon number start site end site
TU66063 False 640 TUCP 0.41 5 13080610 13082119
XM_043241811.1 True 685 mRNA 0.41 5 13080565 13082119

Neighbor

gene id symbol gene type direction distance location
inpp5d LOC107694111,LOC107590654,LOC107717933,LOC107696774,LOC107552268,LOC107752650 coding upstream 519 13065838 ~ 13080046 (+)
gpr17 gpr17,LOC107752663,LOC107717943,LOC107694121,LOC107590682,LOC107552259,LOC107696754 coding upstream 16136 13058859 ~ 13064429 (+)
LOC122346752 LOC107590657,LOC107694127,LOC107717944,LOC107696773,LOC107752637,LOC107552269 coding upstream 22444 13039523 ~ 13058121 (+)
sap130a sap130a,LOC107696772,LOC107590658,LOC107717942,LOC107552246 coding upstream 42285 13024547 ~ 13038280 (+)
amotl2a amotl2a,LOC107717938,LOC107694113,LOC107752638,LOC107590659,LOC107696770,LOC107552270 coding upstream 66164 13004991 ~ 13014401 (+)
LOC122346939 lpp,LOC107684332,LOC107590653,LOC107717931,LOC107696776,LOC107752632,LOC107552245,LOC108427685 coding downstream 37076 13119195 ~ 13279180 (+)
tprg1 tprg1,LOC107590652,LOC107751286,LOC107684336,LOC107552257,LOC107696755,LOC107752662 coding downstream 231938 13314057 ~ 13333574 (+)
tp63 tp63,LOC107574491,LOC107590651,LOC107659018,LOC107752631,LOC107696778 coding downstream 268402 13350521 ~ 13390651 (+)
LOC122347353 LOC107731845,LOC107659022,LOC107692422 coding downstream 387285 13469404 ~ 13471933 (+)
rpl5b rpl5b,rpl5,LOC107659024,LOC107590646,LOC107732018,LOC107566486,LOC107692344,LOC103368809 coding downstream 454392 13536511 ~ 13542567 (+)
G44622 NA non-coding upstream 380988 12664820 ~ 12699577 (+)
G44611 NA non-coding upstream 408900 12564092 ~ 12671665 (+)
G44606 LOC107593190,LOC107696746,LOC107552261,LOC107753661,LOC107694109,LOC107752664 non-coding upstream 586923 12492953 ~ 12493642 (+)
G44604 NA non-coding upstream 598383 12477124 ~ 12482182 (+)
G44575 hdlbp,LOC107733253,LOC107694132,LOC107552253,LOC107696756,LOC107752661 non-coding upstream 1086428 11993558 ~ 11994137 (+)
G44615 NA non-coding downstream 1261 13083380 ~ 13084230 (+)
G44640 NA non-coding downstream 11737 13093856 ~ 13095910 (+)
LOC122346816 NA non-coding downstream 19160 13101279 ~ 13103566 (+)
G44872 NA non-coding downstream 231434 13313553 ~ 13313854 (+)
G44873 NA non-coding downstream 253070 13335189 ~ 13335542 (+)
crocc2 crocc2,LOC107593190,LOC107753661,LOC107694109,LOC107752664,LOC107552261,LOC107696746 other upstream 274865 12765821 ~ 12805700 (+)
LOC122347491 LOC107593172,LOC107593170,LOC107694117,LOC107753639,LOC107552274 other upstream 553608 12521773 ~ 12526957 (+)
scly scly,LOC107552249,LOC107552250,LOC107752645 other upstream 920666 12154268 ~ 12159899 (+)
G44588 NA other upstream 988110 12087399 ~ 12092455 (+)
LOC122346564 LOC107733248,LOC107694106,LOC107576895 other upstream 1070026 12002147 ~ 12010539 (+)
G44645 NA other downstream 26616 13108735 ~ 13109366 (+)
G44887 NA other downstream 312110 13394229 ~ 13409912 (+)
meltf mfi2,LOC107692364,LOC107709202,LOC107659038,LOC107591189,LOC107739178,LOC107590629 other downstream 890054 13972173 ~ 13980286 (+)
pomgnt1 pomgnt1,LOC107675946,LOC107692396 other downstream 2154046 15236165 ~ 15244280 (+)
G45419 sgip1,sgip1a,LOC107739126 other downstream 2276742 15358861 ~ 15459386 (+)

Expression


Co-expression Network