XLOC_011260 (srp54)


Basic Information

Item Value
gene id XLOC_011260
gene name srp54
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007128.7
NCBI id CM002901.2
chromosome length 53461100
location 10074360 ~ 10090026 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00022474
GATGACGTTTGTGTAGTTGGTCTACCACTCGGCGAAAAAACAGCTGCTGCGAGTTTAGGTTGAAGCCTTGAAGGTTGGAGTGGAGATAACGGTGACAGTTGGATTGTTTTGGGGGGAAACCCCACCACATTGGAAAGTCACATTCATAATAAGAAGTTGGCAGCTGATTAACCGCAAAAATGGTTTTAGCTGATCTGGGGAGGAAAATAACCTCAGCTTTGAGGTCTCTCAGCAATGCCACCATCATCAATGAGGAGGTATTAAATGCTATGCTCAAAGAAGTCTGTGCTGCCCTGCTGGAGGCTGATGTGAATATCAAGTTGGTAAAGCAGCTTAGGGAAAATGTCAAGGCAGCCATTGATTTGGAGGAGATGGCCTCCGGTCTGAACAAGAGACGAATGATCCAACATGCCGTTTTCAAGGAACTTGTCAAGCTAGTGGATCCTGGAGTGAAAGCTTGGACTCCGACAAAAGGAAAGAACAACGTCATCATGTTTGTGGGTCTGCAGGGCAGTGGGAAAACCACAACATGTTCTAAGTTGGCATACTACTTCCAAAGAAAAGGATGGAAAACGTGTTTGATTTGTGCTGACACATTCAGAGCAGGTGCCTTTGACCAACTCAAGCAAAATGCAACAAAAGCCAGAATACCCTTTTACGGCAGTTACACAGAAATGGACCCGGTGATCATAGCTGCAGAAGGTGTAGAAAAATTCAAGTCGGAAAACTTTGAAATAATCATCGTGGACACAAGTGGTAGACATAAACAGGAAGACTCGCTTTTTGAAGAAATGCTTCAGGTGTCAAATGCTGTGCAACCTGACAATATAGTGTACGTGATGGACGCCTCCATTGGTCAGGCTTGCGAGGCTCAAGCTAAGGCCTTTAAAGACAAGGTAGATGTGGCTTCTGTTATTGTCACCAAACTGGACGGCCATGCCAAGGGTGGTGGTGCGCTCAGTGCTGTGGCTGCCACAAAGAGTCCCATCATTTTTATCGGCACAGGCGAGCACATTGATGACTTTGAGCCTTTCAAAACTCAGCCCTTCATAAGCAAACTACTTGGTATGGGAGACATTGAGGGACTGATTGACAAAGTGAATGAACTAAAGCTTGATGACAACGAGGAGCTAATTGACAAGCTTAAACACGGTCAGTTTACACTCAGGGACATGTATGAGCAGTTTCAGAACATCATGAAGATGGGACCCTTCGGTCAGATCATGGGCATGATCCCAGGTTTCGGAACCGATTTCATGAGCAAAGGAAACGAGCAGGAGTCTATGGCCAGGCTAAAGAAACTCATGACAATAATGGATAGTATGAATGACCAGGAACTGGACAACAAAGATGGCGCCAAGCTCTTCAGCAAACAGCCGAACCGCATCCAGCGAGTGGCCCGGGGGTCTGGAGTGGCCACCAGGGATGTACAAGAGTTGCTCACCCAGTACACAAAGTTTGCCCAGATGGTCAAGAAGATGGGAGGCATTAAAGGCTTGTTTAAAGGAGGAGACATGTCCAAGAACGTCAACCCATCACAGATGGCGAAACTGAACCAGCAGATGGCTAAAATGATGGATCCAAGAGTGCTTCATCACATGGGTGGCATGGCCGGACTGCAGTCTATGATGAGGCAGTTTCAACAGGGAGCTGCTGGCAACATGAAAGGCATGATGGGATTTAACAACATGTGAACCTGCAAACAGAGGACACTAAAAGAATCTGATGGTTTTGGCAAGCAAAACGGGCCGATGAAGATAGTTTGATTTGTATGTCTTGTATGCCACAAgtaatttaattctttaaaagGTGTAAAACATTAAATGGAGGCACATTTACATGTAAAAGCCCAATGTGTCTTCTTTGGAGCAGGATTGATATGGGGGACTATTAGAAGAAATTATGCTTCCTGAGATCAAGTCCAGCGACGTTCAAAATGTCACGTGAGGTTGGAAAGTGATCAGCTtggcaaatacacacacacacacacacacacacacacacacacacacacacacacacacacacacagagacgtcTGGATCTGAGTGCTTTACGATACTGCCAGACTTGTCGACAGCTGATTTCTTTCGGTTATATGATTTTACCGTAATTGCTATGACCGTCTTCATAGCAAAGGATATTCATAAGTAGAAAATCATGGTTTATTGTATAATTGACTGTTTCTGATTTATTAATCTGCCATAGAGAAGCTCCAGCTTTGTATCAGAGATGAATACAGTAGTTGCAAAAGAGTATGTGGCAATATTTTgtcataatattataataaagtttatatggcaacattttaacaa
>TCONS_00022475
GCAGGTTGGCAGCTGATTAACCGCAAAAATGGTTTTAGCTGATCTGGGGAGGAAAATAACCTCAGCTTTGAGGTCTCTCAGCAATGCCACCATCATCAATGAGGAGGTATTAAATGCTATGCTCAAAGAAGTCTGTGCTGCCCTGCTGGAGGCTGATGTGAATATCAAGTTGGTAAAGCAGCTTAGGGAAAATGTCAAGGCAGCCATTGATTTGGAGGAGATGGCCTCCGGTCTGAACAAGAGACGAATGATCCAACATGCCGTTTTCAAGGAACTTGTCAAGCTAGTGGATCCTGGAGTGAAAGCTTGGACTCCGACAAAAGGAAAGAACAACGTCATCATGTTTGTGGGTCTGCAGGGCAGTGGGAAAACCACAACATGTTCTAAGTTGGCATACTACTTCCAAAGAAAAGGATGGAAAACGTGTTTGATTTGTGCTGACACATTCAGAGCAGGTGCCTTTGACCAACTCAAGCAAAATGCAACAAAAGCCAGAATACCCTTTTACGGCAGTTACACAGAAATGGACCCGGTGATCATAGCTGCAGAAGGTGTAGAAAAATTCAAGTCGGAAAACTTTGAAATAATCATCGTGGACACAAGTGGTAGACATAAACAGGAAGACTCGCTTTTTGAAGAAATGCTTCAGGTGTCAAATGCTGTGCAACCTGACAATATAGTGTACGTGATGGACGCCTCCATTGGTCAGGCTTGCGAGGCTCAAGCTAAGGCCTTTAAAGACAAGGTAGATGTGGCTTCTGTTATTGTCACCAAACTGGACGGCCATGCCAAGGGTGGTGGTGCGCTCAGTGCTGTGGCTGCCACAAAGAGTCCCATCATTTTTATCGGCACAGGCGAGCACATTGATGACTTTGAGCCTTTCAAAACTCAGCCCTTCATAAGCAAACTACTTGGTATGGGAGACATTGAGGGACTGATTGACAAAGTGAATGAACTAAAGCTTGATGACAACGAGGAGCTAATTGACAAGCTTAAACACGGTCAGTTTACACTCAGGGACATGTATGAGCAGTTTCAGAACATCATGAAGATGGGACCCTTCGGTCAGATCATGGGCATGATCCCAGGTTTCGGAACCGATTTCATGAGCAAAGGAAACGAGCAGGAGTCTATGGCCAGGCTAAAGAAACTCATGACAATAATGGATAGTATGAATGACCAGGAACTGGACAACAAAGATGGCGCCAAGCTCTTCAGCAAACAGCCGAACCGCATCCAGCGAGTGGCCCGGGGGTCTGGAGTGGCCACCAGGGATGTACAAGAGTTGCTCACCCAGTACACAAAGTTTGCCCAGATGGTCAAGAAGATGGGAGGCATTAAAGGCTTGTTTAAAGGAGGAGACATGTCCAAGAACGTCAACCCATCACAGATGGCGAAACTGAACCAGCAGATGGCTAAAATGATGGATCCAAGAGTGCTTCATCACATGGGTGGCATGGCCGGACTGCAGTCTATGATGAGGCAGTTTCAACAGGGAGCTGCTGGCAACATGAAAGGCATGATGGGATTTAACAACATGTGA
>TCONS_00022476
attgtggagttaacaataatattattatattttatttataatgcgcttTGCTTTAACTCAAATCGCTAATTTAGCACTGAGCTAGGAGTTTGAGTCAAACAGTAAAATTGTGCATTTTTCCTCTAGGTATGGGAGACATTGAGGGACTGATTGACAAAGTGAATGAACTAAAGCTTGATGACAACGAGGAGCTAATTGACAAGCTTAAACACGGTCAGTTTACACTCAGGGACATGTATGAGCAGTTTCAGAACATCATGAAGATGGGACCCTTCGGTCAGATCATGGTAACGTCaacattaaaaaaaggaaaaatcaaactGAAAGAAATTTATTTGGCAGATGTTTTCCATAATTTCTGATTTTCTTCGTGTGTGTTCAGGGCATGATCCCAGGTTTCGGAACCGATTTCATGAGCAAAGGAAACGAGCAGGAGTCTATGGCCAGGCTAAAGAAACTCATGACAATAATGGATAGTATGAATGACCAGGGTATGTGATTTGTTCTAAAACGAGAACAATGCATACATTTCCATGCCCTGTTTAAGCGTTGCATTAAGGTGCATCCTTGTTGATCTCAGCAATGTTAAAActggttttaaaatgttttgagccAATCTGATTTCAGCCACCTTCAGAGTCGAAAGCACATTTCATGGCTTTGCTTTTGTAGTGCTGATGCTCTTGTTGTCAGGTGCCAAAGACTCAGACTACATTTACACGAAACATAATCAGCCTTGTGTATATTCGTTTATACTTGCCTTAAAT

Function

symbol description
srp54 Predicted to enable 7S RNA binding activity and endoplasmic reticulum signal peptide binding activity. Predicted to contribute to GTPase activity. Acts upstream of or within exocrine pancreas development and neutrophil chemotaxis. Predicted to be located in cytoplasm and nuclear speck. Predicted to be part of signal recognition particle, endoplasmic reticulum targeting. Predicted to be active in cytosol. Used to study Shwachman-Diamond syndrome. Human ortholog(s) of this gene implicated in severe congenital neutropenia 8. Orthologous to human SRP54 (signal recognition particle 54).

GO:

id name namespace
GO:0006614 SRP-dependent cotranslational protein targeting to membrane biological_process
GO:0006616 SRP-dependent cotranslational protein targeting to membrane, translocation biological_process
GO:0031017 exocrine pancreas development biological_process
GO:0030851 granulocyte differentiation biological_process
GO:0030593 neutrophil chemotaxis biological_process
GO:0005786 signal recognition particle, endoplasmic reticulum targeting cellular_component
GO:0048500 signal recognition particle cellular_component
GO:0005829 cytosol cellular_component
GO:0005737 cytoplasm cellular_component
GO:0030942 endoplasmic reticulum signal peptide binding molecular_function
GO:0003924 GTPase activity molecular_function
GO:0005525 GTP binding molecular_function
GO:0000166 nucleotide binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0008312 7S RNA binding molecular_function

KEGG:

id description
ko03060 Protein export
ko03070 Bacterial secretion system
ko02024 Quorum sensing
ko02044 Secretion system

ZFIN:

id description
ZDB-GENE-040426-818 Predicted to enable 7S RNA binding activity and endoplasmic reticulum signal peptide binding activity. Predicted to contribute to GTPase activity. Acts upstream of or within exocrine pancreas development and neutrophil chemotaxis. Predicted to be located in cytoplasm and nuclear speck. Predicted to be part of signal recognition particle, endoplasmic reticulum targeting. Predicted to be active in cytosol. Used to study Shwachman-Diamond syndrome. Human ortholog(s) of this gene implicated in severe congenital neutropenia 8. Orthologous to human SRP54 (signal recognition particle 54).

Ensembl:

ensembl_id ENSDARG00000098367

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00022474 False 2315 mRNA 0.44 17 10074360 10090026
TCONS_00022475 False 1543 mRNA 0.47 15 10076154 10089405
TCONS_00022476 True 767 lncRNA 0.38 2 10083696 10084581

Neighbor

gene id symbol gene type direction distance location
XLOC_011259 NA coding upstream 131637 9916763 ~ 9942723 (+)
XLOC_011258 NPAS3 coding upstream 180203 9308425 ~ 9894157 (+)
XLOC_011257 akap6 coding upstream 807185 8988374 ~ 9267175 (+)
XLOC_011256 psmc1a coding upstream 1132939 8899016 ~ 8941421 (+)
XLOC_011255 tonsl coding upstream 1219055 8799451 ~ 8855305 (+)
XLOC_011261 sec23a coding downstream 612 10090638 ~ 10145432 (+)
XLOC_011262 clec14a coding downstream 152140 10242166 ~ 10243888 (+)
XLOC_011263 foxa1 coding downstream 228045 10318071 ~ 10320932 (+)
XLOC_011264 tyro3 coding downstream 411621 10501647 ~ 10553538 (+)
XLOC_011265 mgaa coding downstream 476464 10566490 ~ 10590378 (+)
XLOC_011252 FO818681.1 non-coding upstream 1602143 8472101 ~ 8472217 (+)
XLOC_011250 NA non-coding upstream 1758903 8308590 ~ 8315457 (+)
XLOC_011249 BX248131.2 non-coding upstream 1773856 8300390 ~ 8300504 (+)
XLOC_011246 NA non-coding upstream 1844477 8225655 ~ 8229883 (+)
XLOC_011269 NA non-coding downstream 681827 10771853 ~ 10775305 (+)
XLOC_011272 FP102895.1 non-coding downstream 1284748 11374774 ~ 11374896 (+)
XLOC_011273 NA non-coding downstream 1287966 11377992 ~ 11379853 (+)
XLOC_011274 CU076099.4 non-coding downstream 1311921 11401947 ~ 11401960 (+)
XLOC_011275 NA non-coding downstream 1328457 11418483 ~ 11419622 (+)

Expression


Co-expression Network