XLOC_013930 (seh1l)


Basic Information

Item Value
gene id XLOC_013930
gene name seh1l
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 12406583 ~ 12431988 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00027825
AGGCTTGATAGGAGACTTGCAGTAACTCCGCTAGTGCAATAGATGGCAGTAAACTGTGTTCGACTGCAGTATTAAAGCAGCGAACAACGAATTCGAGTGAAGAAACATGGCACCGTAGAGCTCGATGTTTCTGCTAAAGTTTGAACAAACCCCCTTCTGCTGATTCTTTTTCTAAACTGTAGGATATATTTTACAAGCCTAATTAATAGTTAGTTTCCATGCAATATGTTTGTTGCGAAAAGCATCGCAGCGGATCATAAAGATCTGATTCACGATGTCTCCTACGACTTCCATGGACGGAGGATGGCGACCTGCTCCAGTGATCAGAGCGTCAAGGTCTGGGATAAAGGTGATGATGGAGAATGGCACTGCACTGCTAGTTGGAAGaCTCATAGTGGGTCTGTGTGGAGGGTGACGTGGGCACATCCCGAGTTTGGTCAAGTGTTGGCATCTTGTTCCTTTGACCGCACTGCAGCTGTGTGGGAGGAGATAGTTGGAGAATCCAACGACAAACAACGGGGGCAAAGTCATTGGATCAAGAGAACCACACTGGTGGACAGTCGGACGTCAGTAACCGATGTAAAGTTTGCACCGAAGCACATGGGTCTGATGTTGACCACCTGCTCTGCAGACGGTGTGGTGCGCATCTATGAGGCTCCTGATGTGATGAACCTCAGCCAGTGGTCACTCCAGCACGAGATCTCCTGCAAACTCGCCTGTTCCTGCATCTCCTGGAACCCCTCCAGTTCTCGGGCTCATCCTCCAATGATAGCTGTGGGCGGTGATGACAGCAACGGCGCTTACAGTGGCAAAGTGCAAATCCATGAGTACAATGAAAATACAAGAAAGTATGCCAAAGCAGAGACATTGATGACCGTAACTGACCCAGTGCATGACATCGCCTTTGCTCCTAATCTGGGGAGATCCTTCCATGTGCTGGCAATAGCGACCAAAGACGTTCGCATTTTCAAACTCCTACCACTGAGGAGAGAGAGCGCCAACAGCTCTGGTCCCACTAAGTTCGAGGTGCAGGTGATGGCTCAGTTTGACAGTCATAACTCTCAGGTGTGGCGCGTGAGCTGGAACATAACCAGCACGCTGCTGGCCTCCTCTGGAGATGACGGCTGTGTGAGGCTCTGGAAAGCTAATTACATGGACAACTGGAAGTGCACAGGGATCCTGAGAGGAGATGGGAGTCCAGTGAATGGCTCTTCTGGACCCTCTGCTGCTCTGAGTGCTGTCGGCGTCCCTGGAGCTGCTCAGATGATTGTAGGCGCAGCTACTGCTGGCAGaaagaaaGCTCAGCTGATGCCAGGCTAACAGCATAGTGTGCTGATTGGCTGCTTGCTGCATGCAAATGCACAGGATTGGACGAGACCTCATTGACCCCTTCCCCTGCACGGTGTGGCACCTGCACACTCTTCTAGCTACTAATCcgacagaagtgtgtgtgttgaTGATTTCTAAAGCGGCTGATTAAGGAactttgcctgtgtgtgttttgttcagtGGCACTTACCTGACAttgagcatttttgttttttatcactGAACAACTAAACATGATTCCCATCATCAATACGACTTTCTTATTATTAATTGTTGAATGTGGTGATATTTGAATCCTTCTAAGGTCATTTTAAAGCTTCAAACATGAATCTTGTCAAAAGAGTTGTAGACGTGATAGCTTTTAAAGAAAGAGTTCACTCAAAAACGAAATATTTCCTATGTTTGTCttcatattcatttaaaaaatgcagtttgttctaactacacatttaaaatgagctcaaacaacacaattcctgagttttttttttgggacGACTGAATTGTTTTATGATCAGTCAACATAACTTTGTTAAACCCATTCatttaacttaatagatttgcaTTGGGATGACAAAGTATTAGGTGGAACCCAGCGTTTTTTACAATGTTGTTTTGTAATGTTAACACCCGTGTTCTTACATGCAAAATGAGACgtctggattttttttattatataaaatattaagttaatttgGTTGATTGCATTTAATATctgacagttttcatttttgagtcACTCTAGcttttaaaatgagatttttcaCACACAGAAAATTGATGATATGTGTTCATTTGCTCACCATCAGACAATCTAAGATGTAGATGACTTTATTTTCTTCAGCAGaacatttaaaaaggtttttagTGCTTAGTAATTCTAAAATTGCAAGTCAATTGCTACTTTTAGTTGTAAAAAAACGtataagcaaaacaaaatgaataccctTAGCTCCTGATGAAATATCGAGGTCTTGGAATGCAAAACAATCAGGTTTGTGAAAGATGCCATTATTTAACGTGTTACAGTTTGTCGATGCTCTAGCATTTTTTTGGTCACCAcagtttttttccaaatattttctttaatgttctatagaagaagaaaaaaaaaatcagctaccTCTTGGGTTAGTATTTTTTTGAGACGACATCCACTTCAACTCAGCCTCCAAAGAGCTCTACACATATTAGTGCTGTTGATTGAAGCATGTGTTCTGCGGTGTGGACAATAGAGGGAGATACTGTATCATTTCAGAACTGCACAAATCTTCAAACATGGCCTTGGAATTACTAACACGTAACATTTTCACTTGTTTAACTAATTCTTTTCCATATTTATGTTACTGCTCTTGGATTTCAGCACAGACAGTTTGCACTAAAACAAGCAGCTTTCTACTGTGCTAAAACTCTGATAGTCGTGAAACATTTGACATTGAAGTTCCTTttaaaaactgaacattctgtatTGTGGTAACACTTGAATTGGGGTTTCTAAAGGAGATTATTGAAGCCGACAAAATCTGTTTTGAGTGtcctttttttgtaaaaatgaacattttttgtagttctaaattctataataaaaacatctctgAGGTTTCTCTGAA
>TCONS_00027826
GTGTTCGACTGCAGTATTAAAGCAGCGAACAACGAATTCGAGTGAAGAAACATGGCACCGTAGAGCTCGATGTTTCTGCTAAAGTTTGAACAAACCCCCTTCTGCTGATTCTTTTTCTAAACTGTAGGATATATTTTACAAGCCTAATTAATAGTTAGTTTCCATGCAATATGTTTGTTGCGAAAAGCATCGCAGCGGATCATAAAGATCTGATTCACGATGTCTCCTACGACTTCCATGGACGGAGGATGGCGACCTGCTCCAGTGATCAGAGCGTCAAGGTCTGGGATAAAGGTGATGATGGAGAATGGCACTGCACTGCTAGTTGGAAGATCAAGAGAACCACACTGGTGGACAGTCGGACGTCAGTAACCGATGTAAAGTTTGCACCGAAGCACATGGGTCTGATGTTGACCACCTGCTCTGCAGACGGTGTGGTGCGCATCTATGAGGCTCCTGATGTGATGAACCTCAGCCAGTGGTCACTCCAGCACGAGATCTCCTGCAAACTCGCCTGTTCCTGCATCTCCTGGAACCCCTCCAGTTCTCGGGCTCATCCTCCAATGATAGCTGTGGGCGGTGATGACAGCAACGGCGCTTACAGTGGCAAAGTGCAAATCCATGAGTACAATGAAAATACAAG
>TCONS_00027827
AGTTCTCGGGCTCATCCTCCAATGATAGCTGTGGGCGGTGATGACAGCAACGGCGCTTACAGTGGCAAAGTGCAAATCCATGAGTACAATGAAAATACAAGAAAGTATGCCAAAGCAGAGACATTGATGACCGTAACTGACCCAGTGCATGACATCGCCTTTGCTCCTAATCTGGGGAGATCCTTCCATGTGCTGGCAATAGCGACCAAAGACGTTCGCATTTTCAAACTCCTACCACTGAGGAGAGAGAGCGCCAACAGCTCTGGTCCCACTAAGTTCGAGGTGCAGGTGATGGCTCAGTTTGACAGTCATAACTCTCAGGTGTGGCGCGTGAGCTGGAACATAACCAGCACGCTGCTGGCCTCCTCTGGAGATGACGGCTGTGTGAGGCTCTGGAAAGCTAATTACATGGACAACTGGAAGTGCACAGGGATCCTGAGAGGAGATGGGAGTCCAGTGAATGGCTCTTCTGGACCCTCTGCTGCTCTGAGTGCTGTCGGCGTCCCTGGAGCTGCTCAGATGATTGTAGGCGCAGCTACTGCTGGCAGGTATTTCTTCCCTCATCTGGACACCCCCAGAGCTGGATCTCGCCTGGCTCATCTCCTGCCTCCCCCTTCTCTGATTGAGCAGATGTATGAGTCTGatcccacacacacacctcagctGCGCCACCGACACATCAACTCCACCAACCAACCCACTGAGCATGACTGACGAACACACACTCCTCTGCTTTTCATGCTCGTTTTAATcttgtgtttgtttaattgttgtgATCAGAGAAGTTGgtctttgtttatatatttatacatgcactcaatgtattttggtgcatttaaacaattttgtaaaattttattatGTCTTTAAATAAGAGTGTGGTcacaaacatctttagaaacagaaagataataatagttttcatttttttgc
>TCONS_00027828
AAAGTATGCCAAAGCAGAGACATTGATGACCGTAACTGACCCAGTGCATGACATCGCCTTTGCTCCTAATCTGGGGAGATCCTTCCATGTGCTGGCAATAGCGACCAAAGACGTTCGCATTTTCAAACTCCTACCACTGAGGAGAGAGAGCGCCAACAGCTCTGGTCCCACTAAGTTCGAGGTGCAGGTGATGGCTCAGTTTGACAGTCATAACTCTCAGGTGTGGCGCGTGAGCTGGAACATAACCAGCACGCTGCTGGCCTCCTCTGGAGATGACGGCTGTGTGAGGCTCTGGAAAGGTCAGTCGTCAACTCAGTCTGCTACCTGCGGAGTGAACCTTTTGAACTCCATTTCACCATGAAAGTTCATTATTATTGCCTATAGAGATGATCTTTACAGTCTATATTAGGAAGTTGGTTTCCACAAATTCCCAAGAACAaatgtgtcaaactcagttcctggagggccacagctctgctaagtttagttccagcctaacttcaacacacttgcctgtggGTTTTAAACAAGCCAGAAGGACTGAATGAGTTTGATTAAgtatgtttaattagggttaaagctaaaattTGCAGATCTCTGGCCATCCAGACACTGAGTTTGACACTTTTGCCTTAAAT

Function

symbol description
seh1l Predicted to enable structural molecule activity. Predicted to be involved in several processes, including attachment of mitotic spindle microtubules to kinetochore; cellular response to amino acid starvation; and positive regulation of TORC1 signaling. Predicted to act upstream of or within several processes, including chromosome segregation; mRNA transport; and protein transport. Predicted to be located in lysosomal membrane. Predicted to be part of Seh1-associated complex and nuclear pore outer ring. Predicted to colocalize with kinetochore. Orthologous to human SEH1L (SEH1 like nucleoporin).

GO:

id name namespace
GO:1904263 positive regulation of TORC1 signaling biological_process
GO:0006999 nuclear pore organization biological_process
GO:0007049 cell cycle biological_process
GO:0015031 protein transport biological_process
GO:0007059 chromosome segregation biological_process
GO:0051028 mRNA transport biological_process
GO:0051301 cell division biological_process
GO:0051315 attachment of mitotic spindle microtubules to kinetochore biological_process
GO:0034629 cellular protein-containing complex localization biological_process
GO:0000775 chromosome, centromeric region cellular_component
GO:0000776 kinetochore cellular_component
GO:0000777 condensed chromosome kinetochore cellular_component
GO:0005764 lysosome cellular_component
GO:0005765 lysosomal membrane cellular_component
GO:0035859 Seh1-associated complex cellular_component
GO:0031080 nuclear pore outer ring cellular_component
GO:0005634 nucleus cellular_component
GO:0005643 nuclear pore cellular_component
GO:0005694 chromosome cellular_component
GO:0016020 membrane cellular_component
GO:0005198 structural molecule activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-6689 Predicted to enable structural molecule activity. Predicted to be involved in several processes, including attachment of mitotic spindle microtubules to kinetochore; cellular response to amino acid starvation; and positive regulation of TORC1 signaling. Predicted to act upstream of or within several processes, including chromosome segregation; mRNA transport; and protein transport. Predicted to be located in lysosomal membrane. Predicted to be part of Seh1-associated complex and nuclear pore outer ring. Predicted to colocalize with kinetochore. Orthologous to human SEH1L (SEH1 like nucleoporin).

Ensembl:

ensembl_id ENSDARG00000004280

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00027825 False 2939 mRNA 0.41 9 12406583 12429254
TCONS_00027826 False 643 mRNA 0.48 4 12406638 12413783
TCONS_00027827 False 933 mRNA 0.48 5 12413683 12431988
TCONS_00027828 True 638 lncRNA 0.46 2 12417514 12420573

Neighbor

gene id symbol gene type direction distance location
XLOC_013929 psmg2 coding upstream 46462 12350069 ~ 12360121 (+)
XLOC_013928 NA coding upstream 105692 12295450 ~ 12300891 (+)
XLOC_013927 grhl2b coding upstream 114602 12234975 ~ 12291981 (+)
XLOC_013926 spag1a coding upstream 388137 11984725 ~ 12018446 (+)
XLOC_013925 polr2k coding upstream 424927 11978209 ~ 11981656 (+)
XLOC_013931 ldlrad4a coding downstream 12955 12444943 ~ 12622855 (+)
XLOC_013932 rnmt coding downstream 217703 12649691 ~ 12681815 (+)
XLOC_013933 mc5ra coding downstream 330899 12762887 ~ 12803408 (+)
XLOC_013934 cthrc1a coding downstream 483510 12915498 ~ 12927089 (+)
XLOC_013935 AL844521.1 coding downstream 512862 12944850 ~ 12944966 (+)
XLOC_013922 CU928061.1 non-coding upstream 1128054 11278413 ~ 11278529 (+)
XLOC_013918 CU628002.1 non-coding upstream 1391725 11013622 ~ 11014858 (+)
XLOC_013906 CR384101.1 non-coding upstream 1839097 10567371 ~ 10567486 (+)
XLOC_013895 NA non-coding upstream 2539861 9838182 ~ 9866722 (+)
XLOC_013937 NA non-coding downstream 683277 13115265 ~ 13115526 (+)
XLOC_013938 NA non-coding downstream 798395 13230383 ~ 13249249 (+)
XLOC_013942 NA non-coding downstream 1199337 13631325 ~ 13635810 (+)
XLOC_013943 NA non-coding downstream 1364604 13796592 ~ 13805873 (+)

Expression


Co-expression Network