G171135 (smndc1)


Basic Information

Item Value
gene id G171135
gene name smndc1
gene type non-coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047604.1
NCBI id CM018550.1
chromosome length 29376037
location 24445603 ~ 24450067 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU202527
accgacacacactcacttggaCTTGGGTCTGCTTCCTTCCTCCTTGCTGCTCTTGGCCTGCTCAGCTGCTTTGAGCGCGTGCAGAGGCACCACCTCGGCATTGCCATAGCCGGTGAAGGTGATGGCAGCTGTGCCGTTCTCGCTGTCGATCTCCTCTATCTCTGCTTCGTACTGCTGTCCATCCTGGCTCCACATAGCCATGCAACGATCTCCTACTTTCCAGCTGTGTTTCGGTGGCGCGGCATCTGAACTGTTGGTGCTAGCTACGCCCTCTGCTGGCTGAGACGTCAACAAGTCTTTTGTCAACTCGATCACCTCCTGCAGGTCTTTCTGTAACTTCAGCAGATCTTCATTTTCTGGGTCTGTAGAGAGCGCTGCTTCCACTTGCTGGAGCTGAGCTCTGTAGCTGCTCAGTTGTTTCACCAACTCGTCCGACCTCTCTGTGTGCTCCAAAACACCACTCTTTACGATCTAGTCAAACGCTAATGTCGCTTTGAATCGCCCATGTACACTTAGAATCTGGTGAAAATGGACGGTTTGGTTGTGTCCTTTCTCCTCTCCGACGACAACACTACGAGCAACCGGAAGTGACGTTTTCCGCGTTGGGACACTGCTCTCGCGATAAAAACAGTTCGTTTCGTTAATAAACGCTAAGTGGCGCTTCAGAGTAGATAAACTAAAATGGCGGCGGACGTGTGTTGTTTTCATGGTTAG

Function

symbol description
smndc1 Predicted to enable RNA binding activity. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in Cajal body; cytoplasm; and nuclear speck. Predicted to be part of spliceosomal complex. Predicted to be active in nucleus. Orthologous to human SMNDC1 (survival motor neuron domain containing 1).

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
TU202527 True 714 lncRNA 0.52 4 24445603 24450067

Neighbor

gene id symbol gene type direction distance location
trnar-acg_3 NA coding upstream 15941 24429590 ~ 24429662 (+)
trnah-gug_13 NA coding upstream 16128 24429404 ~ 24429475 (+)
trnae-uuc_2 NA coding upstream 17352 24428180 ~ 24428251 (+)
trnar-acg_2 NA coding upstream 18576 24426955 ~ 24427027 (+)
trnah-gug_12 NA coding upstream 18763 24426769 ~ 24426840 (+)
ptafr ptafr coding downstream 104516 24554583 ~ 24561278 (+)
pacrg pacrg,LOC107695182,LOC107697704,LOC107583491,LOC107590953 coding downstream 179028 24629095 ~ 24767416 (+)
qkia qkia,LOC108269894,LOC107697705,LOC107590898,LOC107721620 coding downstream 332936 24783003 ~ 24861032 (+)
rtraf c9h14orf166,cunh14orf166,zgc:56576,LOC107680004,LOC107693089,LOC107725214,LOC107583671,LOC107751811 coding downstream 597603 25047670 ~ 25055250 (+)
ptger2a LOC108269911 coding downstream 664710 25114777 ~ 25132890 (+)
G171021 ect2l non-coding upstream 127537 24317534 ~ 24318066 (+)
G171019 NA non-coding upstream 135637 24309630 ~ 24309966 (+)
G171017 NA non-coding upstream 137274 24307854 ~ 24308329 (+)
G170904 NA non-coding upstream 409432 24035784 ~ 24036171 (+)
LOC117598313 NA non-coding upstream 411541 24028325 ~ 24034062 (+)
G171121 NA non-coding downstream 35261 24485328 ~ 24491209 (+)
G171215 NA non-coding downstream 309545 24759612 ~ 24800058 (+)
G171352 nid2,wu:fb77a09,LOC107564977 non-coding downstream 622679 25072746 ~ 25076475 (+)
G171413 NA non-coding downstream 684533 25134600 ~ 25134885 (+)
G171430 LOC108191637 non-coding downstream 725759 25175826 ~ 25176233 (+)
LOC113533992 gphna,gphn,LOC108270253,LOC108443923,LOC107752769,LOC107657705,LOC107733155 other upstream 1423208 22861807 ~ 23022395 (+)
G169692 LOC107990201 other upstream 2625544 21819281 ~ 21820059 (+)
im:7136021 LOC108270035 other upstream 2679230 21760771 ~ 21766373 (+)
G169577 heatr5a,LOC108412624 other upstream 2771142 21669907 ~ 21674461 (+)
LOC113530103 LOC108269986 other upstream 3914381 20521595 ~ 20531222 (+)
kdm1a kdm1a other downstream 13399 24463466 ~ 24482854 (+)
cx28.6 LOC108269818,LOC108441857,LOC101482426,LOC102791942,LOC102199391,LOC100705227,LOC102313633,LOC107679991 other downstream 544426 24994493 ~ 25000619 (+)
G171329 NA other downstream 553916 25003983 ~ 25007766 (+)
LOC117598238 LOC108191637 other downstream 726307 25176374 ~ 25177897 (+)
samd4a samd4a other downstream 808744 25258811 ~ 25318277 (+)

Expression


Co-expression Network