XLOC_025206 (rab5c)


Basic Information

Item Value
gene id XLOC_025206
gene name rab5c
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 17615599 ~ 17651899 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049773
CCTCAAAGCGGAAGTGAAGGCCAAGGCCCGTAGACTGGAGACTCTTCGGGCGGCAGGAGGGGAATTTTCTCTCAGTCTGACAGCCAGGGATTTGACAAGAAAGTGAAACCCGCCGCGCTCCTTTCTCAAGGTTTATCCATCCAGCAGGAGCCGCCTCTCCATCCTTTTCTCACTTTCTTTCCCTgattctctgtctctctctctcctgaaCTCTGCTGATCCTGGTTCAGGAAAGCTTGTCGAATCCATCGAGTCCCCCTCTCAGATCCAGTCAGCCTCTCCTCTCCTGTTGTCCAGCCTGTTGGCATGGCGGGGCGAGGTGGACCAGCGCGGACCAACGGTGCCGCCCCCGTCGGGAACAAAATCTGCCAGTTTAAGCTTGTGTTGCTGGGAGAGTCTGCAGTAGGCAAGTCCAGCCTGGTGCTGCGCTTCGTCAAAGGCCAGTTTCACGAGTACCAGGAGAGCACCATTGGAGCTGCTTTCCTCACACAGACACTCTGCTTGGACGATACGACAGTAAAGTTTGAGATCTGGGACACGGCCGGACAGGAGCGGTATCACAGTTTGGCCCCTATGTATTACAGAGGAGCCCAGGCAGCCATCGTCGTCTACGACATTACTAACACAGACACATTTACTAGAGCAAAGAACTGGGTGAAGGAGCTGCAGCGCCAGGCCAGTCCAAATATCGTTATTGCTCTGGCAGGCAACAAAGCAGATCTGGCCAACAAGAGAGCCGTTGACTTTCAGGAGGCCCAGGCATACGCAGATGACAACAGCCTACTCTTCATGGAGACGTCTGCAAAGACCGCCATGAACGTCAATGAGATCTTCATGGCTATCGCCAAGAAGCTTCCGAAAAGCGAGCCGCAGGGTGGAGCGGGCAGCGGGGGACGGGCCCGAGGAGGGGTGGACTTACAGGAGACGGCGCCTCAGGGAAGAAGCGGCCAGTGCTGTGGAGGCGGAAACTAACCAGTGGACCAATCAGCTGGCAGATGCACCCGAGGACTgattcagacacacacaaaaaaaaacacacacacacacacagtatgaaTCCATAGTGTGAGACCCATTCACTTACGACCCagctcttaaaaaaaaatatggccAGCGAGACTGTACTATACAGCCTCAGAACTGGAAACGGGCCACCCTTGTAAATCAACATTAATGTTGCCCTcccaaacaaatacacacacgcgcgcgcatacACATTGAAACTACAACATGTGTGTCTCTGCCATCTATGGTGAGTTATTTGATTCGTCCTATGTAGAAATGAAACGGACACGTGATCTGATCTAATCGCacttaaaaaacaaaccaaacgACAACAAAAGAGAAGAAATTCCAGACTGCTGCTGGTGGAAAAGCAAgttgtctctctctcccttgtATTTTTCTCATGTGTATGACAAATTTATTTAACTCGCACTCCCTTTTGGTGGATGCATACTGCCAGTATTGAGTTGCATCTTTCTTCTCCTCGTTCACATCTCTGCTATTTGTCAGAGATGAAGAGAAAAGGTCGAAGAATGAGAAAGcaggccatttttttttttctttctcccatCTCCACCAGGCCGTTCTGTAGATTCTGTATTATTTCTATTGTATTAGTCTCTCAGACGTTCCACTACTCCAGCACAGATGAGATCCAGTATATGATTTGATAGGCTTAGATGACTTCTTTTTCTAATCATTTTACATATATCTTGTATATCGAAATGCATTAACAGGTGGCATAACTCCATTGTGTTGTTGTTTCCTTCTTTCCTTTACATTAATGAAATACTTTTTTGAAATCAGACTCAgagaaaatgaatacaaattcCTCTGACCAAAATCACAAATATTTACGAGGGGGGGGAAGATATGTTTTCTGtacttgtattttgtttttttctgtgaatAACGATCCCAAATCAATAGTCGGTTCAGCACCTTCGTAAGAATTGACTTGTTTTTGTACCTTGAGGTCTCTTTGAGTGCACTGGGTATTTCTTTGTCCTCTGACAACACATGTCATTTACCGTCAGTATGGCTCCCTCCTGTTGTTCATGGAAGGACATCTTATCTCGACTGGTGTTTTTTTTCCCAGCATCGCTTGTGAACTAGCATAACTAATGTGAACGGTGACACTCGGACGTCTCCAGCAGGCGCTGAGGAACGAGGGAAGCAATGGACAAACAAATAAACGGAAAAAAACCCACAAACCTAATAGAGCTTGTAATTTTACCAATAAAGGAGGGGAAGGTCTA
>TCONS_00049774
CGTAGGAGGAGGTGCAGAGAGATCAGAAGTGAAAGATGTCGGACTTACTTGATGAGGAAGTCAATAATAATGTGGCCTGAGGAGGCTTGATTGACAGGTCAGCGAGATGAGTCATCACTTAAGAGCGCGCTTACATTGAAGACAAGACACTGCAGATGAATAGAAGGAAAACATTTGCTAAAAAGCCATCATCCTGCTACTCCCACACTGGTTTGAATCTGCATTAAGGATTACACAAGGGTTCCCACGAGTCATGGGATTTCTGGAATGTCATGAAATTTGAAAAGGTCTATTTCAGACtgggcatgggctggtataagattctgacgGTTTATCCATCCAGCAGGAGCCGCCTCTCCATCCTTTTCTCACTTTCTTTCCCTgattctctgtctctctctctcctgaaCTCTGCTGATCCTGGTTCAGGAAAGCTTGTCGAATCCATCGAGTCCCCCTCTCAGATCCAGTCAGCCTCTCCTCTCCTGTTGTCCAGCCTGTTGGCATGGCGGGGCGAGGTGGACCAGCGCGGACCAACGGTGCCGCCCCCGTCGGGAACAAAATCTGCCAGTTTAAGCTTGTGTTGCTGGGAGAGTCTGCAGTAGGCAAGTCCAGCCTGGTGCTGCGCTTCGTCAAAGGCCAGTTTCACGAGTACCAGGAGAGCACCATTGGAGCTGCTTTCCTCACACAGACACTCTGCTTGGACGATACGACAGTAAAGTTTGAGATCTGGGACACGGCCGGACA
>TCONS_00049775
CATGGCGGGGCGAGGTGGACCAGCGCGGACCAACGGTGCCGCCCCCGTCGGGAACAAAATCTGCCAGTTTAAGCTTGTGTTGCTGGGAGAGTCTGCAGTAGGCAAGTCCAGCCTGGTGCTGCGCTTCGTCAAAGGCCAGTTTCACGAGTACCAGGAGAGCACCATTGGAGCTGCTTTCCTCACACAGACACTCTGCTTGGACGATACGACAGTAAAGTTTGAGATCTGGGACACGGCCGGACAGGAGCGGTATCACAGTTTGGCCCCTATGTATTACAGAGGAGCCCAGGCAGCCATCGTCGTCTACGACATTACTAACACAGACACATTTACTAGAGCAAAGAACTGGGTGAAGGAGCTGCAGCGCCAGGCCAGTCCAAATATCGTTATTGCTCTGGCAGGCAACAAAGCAGATCTGGCCAACAAGAGAGCCGTTGACTTTCAGGAGGCCCAGGCATACGCAGATGACAACAGCCTACTCTTCATGGAGACGTCTGCAAAGACCGCCATGAACGTCAATGAGATCTTCATGGCTATCGCCAAGAAGCTTCCGAAAAGCGAGCCGCAGGGTGGAGCGGGCAGCGGGGGACGGGCCCGAGGAGGGGTGGACTTACAGGAGACGGCGCCTCAGGGAAGAAGCGGCCAGTGCTGTGGAGGCGGAAACTAACCAGTGGACCAATCAGCT

Function

symbol description
rab5c Predicted to enable GTPase activity. Acts upstream of or within several processes, including angiogenesis; gastrulation with mouth forming second; and regulation of endocytosis. Located in early endosome. Is expressed in axial vasculature; blood; and intermediate cell mass of mesoderm. Orthologous to human RAB5C (RAB5C, member RAS oncogene family).

GO:

id name namespace
GO:0030100 regulation of endocytosis biological_process
GO:0006886 intracellular protein transport biological_process
GO:0006897 endocytosis biological_process
GO:0098609 cell-cell adhesion biological_process
GO:0001525 angiogenesis biological_process
GO:0001702 gastrulation with mouth forming second biological_process
GO:0005768 endosome cellular_component
GO:0005769 early endosome cellular_component
GO:0030139 endocytic vesicle cellular_component
GO:0005886 plasma membrane cellular_component
GO:0012505 endomembrane system cellular_component
GO:0003924 GTPase activity molecular_function
GO:0005515 protein binding molecular_function
GO:0005525 GTP binding molecular_function

KEGG:

id description
ko04014 Ras signaling pathway
ko04144 Endocytosis
ko04145 Phagosome
ko04962 Vasopressin-regulated water reabsorption
ko05132 Salmonella infection
ko05152 Tuberculosis
ko05146 Amoebiasis
ko04131 Membrane trafficking
ko04147 Exosome
ko04031 GTP-binding proteins

ZFIN:

id description
ZDB-GENE-031118-30 Predicted to enable GTPase activity. Acts upstream of or within several processes, including angiogenesis; gastrulation with mouth forming second; and regulation of endocytosis. Located in early endosome. Is expressed in axial vasculature; blood; and intermediate cell mass of mesoderm. Orthologous to human RAB5C (RAB5C, member RAS oncogene family).

Ensembl:

ensembl_id ENSDARG00000026712

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049773 False 2264 mRNA 0.47 6 17615599 17651899
TCONS_00049774 False 747 mRNA 0.51 3 17616201 17640561
TCONS_00049775 True 685 mRNA 0.57 5 17634952 17650625

Neighbor

gene id symbol gene type direction distance location
XLOC_025205 kcnh4a coding upstream 11490 17547532 ~ 17604109 (+)
XLOC_025204 hcrt coding upstream 74151 17537352 ~ 17541448 (+)
XLOC_025202 si:ch211-210g13.5 coding upstream 92517 17346502 ~ 17523082 (+)
XLOC_025203 CU207238.1 coding upstream 153714 17395239 ~ 17461885 (+)
XLOC_025201 stat5a coding upstream 283680 17251542 ~ 17331919 (+)
XLOC_025207 kat2a coding downstream 1885 17653784 ~ 17680114 (+)
XLOC_025208 dhx58 coding downstream 37520 17689419 ~ 17710221 (+)
XLOC_025209 znf385c coding downstream 92440 17744339 ~ 17860047 (+)
XLOC_025210 BX901973.1 coding downstream 204082 17855981 ~ 17879354 (+)
XLOC_025211 dnajc7 coding downstream 226225 17878124 ~ 17910375 (+)
XLOC_025429 BX649540.1 misc downstream 12596840 30248739 ~ 30249036 (+)
XLOC_025197 BX470185.1 non-coding upstream 732295 16874401 ~ 16883304 (+)
XLOC_025188 CR388224.1 non-coding upstream 1242472 16373012 ~ 16373127 (+)
XLOC_025185 NA non-coding upstream 1374259 16186593 ~ 16241340 (+)
XLOC_025184 NA non-coding upstream 1454140 16153224 ~ 16161459 (+)
XLOC_025215 NA non-coding downstream 388714 18040613 ~ 18061783 (+)
XLOC_025218 NA non-coding downstream 537710 18189609 ~ 18197126 (+)
XLOC_025227 NA non-coding downstream 1018925 18670824 ~ 18672291 (+)
XLOC_025229 AL772362.2 non-coding downstream 1119629 18771528 ~ 18788485 (+)
XLOC_025233 AL772362.1 non-coding downstream 1215936 18867835 ~ 18867952 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
bowfin (Amia calva) AMCG00016922 kat2a coding CM030122.1 CM030122.1 34727405 ~ 34757001 (+)