AMCG00019551 (lsm5)


Basic Information

Item Value
gene id AMCG00019551
gene name lsm5
gene type misc
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030124.1
NCBI id CM030124.1
chromosome length 51038645
location 29300955 ~ 29305006 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00019551
CGCATGTGAACCTTCACTGATATGTGCGATTCATCGACGATGCTGTGATGACTAGTACGGTCTGATGAGCACCGCGTTTCAAATCTCCTCGATTGATTAGCCTGGCCTGATCTCTTTCCAACATGGCGGCGACTCCGGCTACAAACCCCTCACAACTGCTCCCGCTCGAGCTGGTGGACAAGTGCATCGGCTCCCGGATCCACATCGTCATGAAGAACGACAAGGAGATTGTGGGGACCCTGCTGGGATTTGACGACTTTGTCATGTTTCCTTCACATTTGATCTCAGACATGGTGCTAGAAGATGTCACAGAATTTGAGATCACACCTGAGGGAAGGAGGATAACCAAACTAGATCAAATCTTACTGAATGGAAACAACATTACAATGCTCATCCCTGGAGGTGAAGGACCTGAAGTATGAGAAGACGGCGAAGGCAAacatcatttctgtttttaagttGTCCTTAACTCCAGTTTTGCTTTTGGATTgtgatcatttttgttttatatgatattttttgtaaaaagaaaaaaatgttttctaacGGCAGCCATTTAATTTTGTGTCTGTTCAAAATGCGTAGTTCGACACTAGTTGTAATTAGTGTATCATGGCTGAAGcctatttttggtttgttataataaaacaagaaacaaaacaagaaaagtgaTGTTGTTATTCTTAGTTTTTATACTGATTGTGAGTTCTCAAAAAGAGTCACATTTGATATTACCTgggtctgttttttttacttcttgaaatataattttaaaccataGAAAATAACTATGCAGTTTTATGAATACATatctcaaaagtattttgaagACAATAATTAAATCGACTGTCTCGTAGGAAAGCTTTTGCAAGAATAATAACACATTGAGAAGGAAGTACTGAGGCAGCAAATACTCTCCAGAAGTAAACTGAATAGAAAATCACTTTCTCACTGTGTTCCTCTGATTATAACTGCATCCTTTTGGGTCTCGATACAAAGTGCTTAAACAAATATATGCCTCATTAAATAATAAGCCAAATTAAACTATTAACTATTGTATGTGTACAAGGTTTTGCACCATGTAGCCTTCAGTTTAAACCTAAAGTATAATGGattgtaataaacaaacaaactgatcaTCCTAAAaagctgtgtgttttgctttaatataGCATAAAACCATACAGTGGAAACAGGTACagctttttcaattaattacttTACAAGCAGATTTCATAAATTGCAGTCATTTAGTTCAGAAATCCCACAAAACACCTCTAGATTTgattgtgtgatttttttttgcagagaaaAATAGCAGCACTGTGGCCAGTGCAGATGTTATAAAGATGTGCATTTCACAATAACTTTATTCAATCTATGTGTGGgtcactgttttattattttcagttatgaATATCTGTCATTGTCTATAGACCTGcagaaaggaaatgtattatttacagtatttaatgtatgtattgagTTATTAATGTCTCata
>TU43819
CGCATGTGAACCTTCACTGATATGTGCGATTCATCGACGATGCTGTGATGACTAGTACGGTCTGATGAGCACCGCGTTTCAAATCTCCTCGATTGATTAGCCTGGCCTGATCTCTTTCCAACATGGCGGCGACTCCGGCTACAAACCCCTCACAACTGCTCCCGCTCGAGCTGGTGGACAAGTGCATCGGCTCCCGGATCCACATCGTCATGAAGAACGACAAGGAGATTGTGGGGACCCTGCTGGGATTTGACGACTTTGTCAACATGGTGCTAGAAGATGTCACAGAATTTGAGATCACACCTGAGGGAAGGAGGATAACCAAACTAGATCAAATCTTACTGAATGGAAACAACATTACAATGCTCATCCCTGGAGGTGAAGGACCTGAAGTATGAGAAGACGGCGAAGGCAAacatcatttctgtttttaagttGTCCTTAACTCCAGTTTTGCTTTTGGATTgtgatcatttttgttttatatgatattttttgtaaaaagaaaaaaatgttttctaacGGCAGCCATTTAATTTTGTGTCTGTTCAAAATGCGTAGTTCGACACTAGTTGTAATTAGTGTATCATGGCTGAAGcctatttttggtttgttataataaaacaagaaacaaaacaagaaaagtgaTGTTGTTATTCTTAGTTTTTATACTGATTGTGAGTTCTCAAAAAGAGTCACATTTGATATTACCTgggtctgttttttttacttcttgaaatataattttaaaccataGAAAATAACTATGCAGTTTTATGAATACATatctcaaaagtattttgaagACAATAATTAAATCGACTGTCTCGTAGGAAAGCTTTTGCAAGAATAATAACACATTGAGAAGGAAGTACTGAGGCAGCAAATACTCTCCAGAAGTAAACTGAATAGAAAATCACTTTCTCACTGTGTTCCTCTGATTATAACTGCATCCTTTTGGGTCTCGATACAAAGTGCTTAAACAAATATATGCCTCATTAAATAATAAGCCAAATTAAACTATTAACTATTGTATGTGTACAAGGTTTTGCACCATGTAGCCTTCAGTTTAAACCTAAAGTATAATGGattgtaataaacaaacaaactgatcaTCC

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
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
AMCG00019551 True 1502 mRNA 0.36 5 29300955 29305006
TU43819 False 1118 TUCP 0.37 5 29300955 29304646

Neighbor

gene id symbol gene type direction distance location
AMCG00019542 kbtbd2 coding upstream 28704 29267911 ~ 29272251 (+)
AMCG00019538 cdh20 coding upstream 200152 29082713 ~ 29100803 (+)
AMCG00019537 NA coding upstream 411304 28826353 ~ 28889651 (+)
AMCG00019534 LOC107714825 coding upstream 570635 28712804 ~ 28730320 (+)
AMCG00019532 NA coding upstream 1265538 28035010 ~ 28035417 (+)
AMCG00019559 NA coding downstream 56452 29361458 ~ 29363773 (+)
AMCG00019549 pde1c,LOC107677308 coding downstream 165057 29470063 ~ 29472946 (+)
AMCG00019548 pde1c,LOC102310279,LOC102794047,LOC101472500,LOC100712431 coding downstream 185971 29490977 ~ 29499133 (+)
AMCG00019558 NA coding downstream 276824 29581830 ~ 29583506 (+)
AMCG00019547 NA coding downstream 380409 29685415 ~ 29712902 (+)
G35031 rnf152,LOC103146929 non-coding upstream 144768 29152700 ~ 29156187 (+)
G35013 NA non-coding upstream 350744 28949969 ~ 28950211 (+)
G34994 NA non-coding upstream 495144 28805586 ~ 28805811 (+)
G34955 NA non-coding upstream 643989 28656590 ~ 28656966 (+)
G34941 NA non-coding upstream 771324 28529171 ~ 28529631 (+)
G35085 NA non-coding downstream 330702 29635708 ~ 29683436 (+)
G35166 NA non-coding downstream 867404 30172410 ~ 30180360 (+)
G35229 NA non-coding downstream 1262870 30567876 ~ 30569067 (+)
G35388 NA non-coding downstream 2094775 31399781 ~ 31403259 (+)
G35447 NA non-coding downstream 2441621 31746627 ~ 31746876 (+)
AMCG00019535 NA other upstream 590068 28613255 ~ 28710887 (+)
AMCG00019496 NA other upstream 5080964 24215877 ~ 24219991 (+)
AMCG00019492 NA other upstream 5214474 24045689 ~ 24086481 (+)
G34511 zfhx4,LOC107590192,LOC107721891 other upstream 5605154 23672125 ~ 23695801 (+)
AMCG00019480 NA other upstream 6052856 23233270 ~ 23248099 (+)
AMCG00019605 NA other downstream 3005031 32310037 ~ 32317571 (+)
AMCG00019609 NA other downstream 3019394 32324400 ~ 32392976 (+)
AMCG00019638 LOC107757182 other downstream 5149203 34454209 ~ 34578440 (+)
AMCG00019641 NA other downstream 5535310 34840316 ~ 34851323 (+)
AMCG00019662 hacd1,LOC105890814,LOC106590135,LOC106578705 other downstream 6741471 36046477 ~ 36063850 (+)

Expression


Co-expression Network