smx5 (LSM2)


Basic Information

Item Value
gene id smx5
gene name LSM2
gene type misc
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048565.1
NCBI id CM023219.2
chromosome length 95772356
location 3632307 ~ 3640949 (-)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_036981414.1
ATGTTTCTTCCACAATCATGACGTATTTTAAAACCGACCAAATGGTATCGTCGTGACATCATCAACCTGAGACGAGGAAGCAGCGCTGAAAACTGAAAATGCTTTTCTACTCCTTTTTCAAGTCCCTGGTGGGGAAGGACGTGGTGGTGGAGCTCAAAAATGACTTGAGCATCTGTGGAACACTTCACTCGGTTGATCAGTACCTGAACATTAAACTGACGGACATCAGTGTCACGGATCCAGAGAAGTATCCACATATGTTATCAGTGAAGAACTGTTTCATCCGAGGCTCTGTGGTGCGGTACGTCCAACTGCCTGCCGATGAGGTTGACACTCAGCTGTTACAGGACGCTGCTCGCAAGGAGGCACTGCAGCAGAAGCAATGACGCTttaacacaatgacatcatggctggggggggggggggggggggggggtttgaaaGATGGACAGAGATGGTTTTTAGTTCGGTTGTAAACAATCATTCGGGTATCAAAATGAAATCTGTTTGCATAGAAGCCCCTGATGTGTTCCTTGTCGACCCTATTTTGCCACATTGGTATTGCAGTGCTTCAGTGTCACTTACCTCAAATGCCAACTAAGGTCTCCCAGCTCTTTGCTACCCTCCTGTTTTGTAAACATTCGGACCTCCAATACTTTCATTTCTCTGTTCGGCGCCACTATTTGCTGATGTCAGAAACGACCAGATTCTGcctgtttttttaattttattttattgatgtccTTGAGAAGCGGTGTCCAGAATGAATATGTTCTCCTTCTGAGGAGAATATTCTCTGCTCTTCTTTtcctttctaaaaacctgttttgagcTTGTAAAGACTCATATTATTTACATCGCCCTTTTTGATGTGTAAATAAACCTTGTTTAAATCCTG
>TU3708
CATCATCAACCTGAGACGAGGAAGCAGCGCTGAAAACTGAAAATGCTTTTCTACTCCTTTTTCAAGTCCCTGGTGGGGAAGGACGTGGTGGTGGAGCTCAAAAATGACTTGAGCATCTGTGGAACACTTCACTCGGTTGATCAGTACCTGAACATTAAACTGACGGACATCAGTGTCACGGATCCAGAGAAGTATCCACATATGTTATCAGTGAAGAACTGTTTCATCCGAGGCTCTGTGGTGCGGTACGTCCAACTGCCTGCCGATGAGGTTGACACTCAGCTGTTACAGGACGCTGCTCGCAAGGAGGCACTGCAGCAGAAGCAATGACGCTttaacacaatgacatcatggctggggggggggggggggggggggggtttgaaaGATGGACAGAGATGGTTTTTAGTTCGGTTGTAAACAATCATTCGGGTATCAAAATGAAATCTGTTTGCATAGAAGCCCCTGATGTGTTCCTTGTCGACCCTATTTTGCCACATTGGTATTGCAGTGCTTCAGTGTCACTTACCTCAAATGCCAACTAAGGTCTCCCAGCTCTTTGCTACCCTCCTGTTTTGTAAACATTCGGACCTCCAATACTTTCATTTCTCTGTTCGGCGCCACTATTTGCTGATGTCAGAAACGACCAGATTCTGcctgtttttttaattttattttattgatgtccTTGAGAAGCGGTGTCCAGAATGAATATGTTCTCCTTCTGAGGAGAATATTCTCTGCTCTTCTTTtcctttctaaaaacctgttttgagcTTGTAAAGACTCATATTATTTACATCGCCCTTTTTGATGTGTAAATAAACCTTGTTTAAATCCTGTTCTTATCGTTTTGAATACAATACACCTGAG

Function

symbol description
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
XM_036981414.1 False 898 mRNA 0.44 5 3632338 3640949
TU3708 True 873 TUCP 0.44 5 3632307 3640893

Neighbor

gene id symbol gene type direction distance location
LOC110518923 LOC105011323 coding downstream 108055 3022610 ~ 3524283 (-)
LOC118964935 NA coding downstream 337764 3291184 ~ 3294574 (-)
LOC118966169 NA coding downstream 628344 3002309 ~ 3003994 (-)
LOC110523943 LOC106573992 coding downstream 817261 2636662 ~ 2815077 (-)
LOC110531934 LOC106574222 coding downstream 1013755 2616583 ~ 2618583 (-)
inpp5d inpp5d coding upstream 6888 3647837 ~ 3700485 (-)
LOC118965007 NA coding upstream 67100 3708049 ~ 3720457 (-)
amotl2a LOC106591579 coding upstream 111477 3752426 ~ 3766194 (-)
cep63 cep63 coding upstream 184284 3825233 ~ 3847645 (-)
LOC110524898 LOC107696768 coding upstream 233889 3874838 ~ 4037960 (-)
G2858 NA non-coding downstream 14807 3602744 ~ 3617531 (-)
G2865 NA non-coding downstream 16543 3615110 ~ 3615795 (-)
G2799 NA non-coding downstream 30005 3599642 ~ 3602333 (-)
G2798 NA non-coding downstream 30225 3599983 ~ 3602113 (-)
G2818 NA non-coding downstream 84138 3547339 ~ 3548200 (-)
G2876 NA non-coding upstream 12109 3653058 ~ 3653559 (-)
G2889 NA non-coding upstream 50025 3690974 ~ 3691632 (-)
G2909 NA non-coding upstream 91357 3732306 ~ 3743202 (-)
G2921 NA non-coding upstream 139340 3780289 ~ 3780701 (-)
G2932 NA non-coding upstream 168777 3809726 ~ 3809950 (-)
G2772 NA other downstream 188239 3442338 ~ 3444099 (-)
G2749 NA other downstream 244123 3385306 ~ 3388215 (-)
G2730 NA other downstream 290470 3339713 ~ 3341868 (-)
G2605 NA other downstream 653422 2978615 ~ 2978916 (-)
G2192 NA other downstream 888764 2742887 ~ 2743574 (-)
LOC110524598 LOC106574123 other upstream 441214 4040460 ~ 4121533 (-)
G3152 NA other upstream 483327 4124276 ~ 4124695 (-)
G3291 NA other upstream 612238 4253187 ~ 4263613 (-)
LOC110486761 kif1a other upstream 1110457 4751406 ~ 4921256 (-)
G3862 NA other upstream 1307734 4948683 ~ 4957072 (-)

Expression


Co-expression Network