lsm5 (lsm5,LOC107653262,LOC107727957,LOC107674592)


Basic Information

Item Value
gene id lsm5
gene name lsm5,LOC107653262,LOC107727957,LOC107674592
gene type misc
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035900.1
NCBI id CM008303.1
chromosome length 25652880
location 13307088 ~ 13311525 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>TU48709
AGTAGTTCTGGTTTAGTTCGGGTTCAGATTGTTTGCAAAATGGCGGCAACAGCGGCTTCAAACCCGTCCCAGCTCCTTCCTCTCGagCTGGTGGACAAATGTATCGGCTCCCGAATTCATATTGTTATGAAAAATGACAAAGAGATTGTGGGGTACCTTACTGGGTTTTGATGACTTTGTCAACATGGTACTTGAGGATGTAACAGAATTTGAGATTACACCAGAAGGCAGAAGAATAACCAAGCTGGATCAGATTCTACTAAATGGAAACAACATAACCATGttaattcCAGGAGGAGAAGGACCGGAAGTATGAGAAGACATCCTGGATTTTTCTTTCATCTCTTTATAACGGCCTTTAGTTGTTTCTCCTGTTTGTAAAAGCTGTCCTTTGAGTTGTactgtcttgttttgtttttttctttatcagaAAACATAAAACCCTGTTTAAAGTTCTGAAACATGACTGCTCAATAACTGAGattttttgttgtaattaaAAATGCA
>XM_022669133.1
TTGTGTTTGTGAGTTCTGTAACTATCTATgagtttgtatgttttttgtatggTTGCTTCAAGCTCAAAAATCAAGCTTTAAGAAGATTTTAACCCCCGTATCCAGACGCAGGCTGTGTTTCTGAGATGTTTTAACCCCGCCAGCAGGGGTCCCTCCTCAGATTCTCTAACAGTAGTTCTGGTTTAGTTCGGGTTCAGATTGTTTGCAAAATGGCGGCAACAGCGGCTTCAAACCCGTCCCAGCTCCTTCCTCTCGagCTGGTGGACAAATGTATCGGCTCCCGAATTCATATTGTTATGAAAAATGACAAAGAGATTGTGGGTACCTTACTGGGTTTTGATGACTTTGTCAACATGGTACTTGAGGATGTAACAGAATTTGAGATTACACCAGAAGGCAGAAGAATAACCAAGCTGGATCAGATTCTACTAAATGGAAACAACATAACCATGttaattcCAGGAGGAGAAGGACCGGAAGTATGAGAAGACATCCTGGATTTTTCTTTCATCTCTTTATAACGGCCTTTAGTTGTTTCTCCTGTTTGTAAAAGCTGTCCTTTGAGTTGTactgtcttgttttgtttttttctttatcagaAAACATAAAACCCTGTTTAAAGTTCTGAAACATGACTGCTCAATAACTGAGattttttgttgtaattaaAAATGCAAGAAAGGATTTGGA

Function

symbol description
lsm5 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; U4/U6 x U5 tri-snRNP complex; and U6 snRNP. Orthologous to human LSM5 (LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated).

NR:

description
PREDICTED: U6 snRNA-associated Sm-like protein LSm5

GO: NA

KEGG:

id description
K12624 LSM5; U6 snRNA-associated Sm-like protein LSm5

RNA

RNA id representative length rna type GC content exon number start site end site
TU48709 False 507 lncRNA 0.39 5 13307102 13311355
XM_022669133.1 True 690 mRNA 0.39 6 13307088 13311525

Neighbor

gene id symbol gene type direction distance location
LOC103042649 NA coding downstream 9658 13271875 ~ 13297430 (-)
LOC103042955 LOC108431373,LOC106578596,LOC103365861,LOC106590056 coding downstream 46262 13254448 ~ 13260826 (-)
LOC111192419 NA coding downstream 97581 13207594 ~ 13209507 (-)
trnam-cau_20 NA coding downstream 106850 13200166 ~ 13200238 (-)
trnam-cau_19 NA coding downstream 109313 13197702 ~ 13197775 (-)
avl9 avl9,LOC102783546 coding upstream 1027 13312552 ~ 13336023 (-)
kbtbd2 kbtbd2,LOC107711671,LOC107674719,LOC107660299,LOC107708283,LOC107551836 coding upstream 27968 13339493 ~ 13351094 (-)
cdh20 cdh20 coding upstream 50211 13361736 ~ 13385263 (-)
LOC103043889 ppp1r9bb,LOC107741705,LOC107684769,LOC107713069,LOC107675672 coding upstream 80294 13391819 ~ 13420942 (-)
dnajc9 dnajc9,LOC107684784,LOC107751706 coding upstream 197431 13508956 ~ 13514238 (-)
G36114 NA non-coding downstream 296076 13006516 ~ 13011012 (-)
G36125 NA non-coding downstream 301341 13005499 ~ 13005747 (-)
G36124 NA non-coding downstream 305069 13001731 ~ 13002019 (-)
G36123 NA non-coding downstream 312201 12994574 ~ 12994887 (-)
G36122 NA non-coding downstream 315667 12991074 ~ 12991421 (-)
G36223 NA non-coding upstream 134522 13446047 ~ 13450206 (-)
G36236 NA non-coding upstream 189771 13501296 ~ 13504050 (-)
G36253 NA non-coding upstream 247693 13559218 ~ 13573367 (-)
G36257 NA non-coding upstream 276261 13587786 ~ 13609936 (-)
G36283 NA non-coding upstream 367271 13678796 ~ 13758346 (-)
G36074 NA other downstream 595543 12709808 ~ 12711545 (-)
LOC103036331 NA other downstream 1234661 12067533 ~ 12072427 (-)
clrn3 NA other downstream 2223906 11053659 ~ 11083182 (-)
rpl38 NA other downstream 3875860 9426075 ~ 9431228 (-)
G35512 NA other downstream 4101177 9204570 ~ 9205911 (-)
p4ha1 p4ha1,p4ha1a,LOC107753313,LOC108273903,LOC107560551,LOC107684765 other upstream 163641 13475166 ~ 13500177 (-)
c4h10orf88 LOC103041415 other upstream 1474427 14785952 ~ 14797212 (-)
G36677 NA other upstream 2435875 15747400 ~ 15774593 (-)
LOC103023526 ndua4,ndufa4,LOC103023526,LOC108443163,LOC107745684,LOC107684782,LOC107569184 other upstream 2525580 15837105 ~ 15840516 (-)
LOC103043629 LOC108412394 other upstream 3602045 16913570 ~ 16915285 (-)

Expression


Co-expression Network