XLOC_003473 (si:dkey-13a21.4)


Basic Information

Item Value
gene id XLOC_003473
gene name si:dkey-13a21.4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 25430851 ~ 25435922 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00006809
GACATTGGAGGCTGAAATGAAGCAAAGAGAAGTGTTGACTGCGATGAGCTCCTTTTTCTGAAGACAGCTTTGGTTATTTTTATCATGACTGAGTGGAACACACCACACTTGAAACTGATTCTTATCGGAAACTCTGGAGTGGGAAAATCTTCATTTATGACCCGATTTGTTGACCATCGATTTACTAATTTGTATCGTGCCACAATTGGGGTAGATTTCCTAACTAAAGAAATCACTGTTGATAGAAGACCAGTGATTCTTCAGCAGATCTGGGACACTGCAGGCACAGAGAGGTTTCATTCCCTGGGTAGTTCATTATATCGTGGAGCTCAATGCTGCCTCCTAGTGTTTGATGTGACCTCGTCTGTCTCCTTTGAAGCGCTGGACGTCTGGAAGAAAGAGTTCCTGGTGCAGGCCTGTCCTTCAGACCCAGCTGCGTTCCCTTTTATTGTGCTCGGCAATAAAATCGACCTGGATCATCGTCAGgtgtcaACATCCAAAGCTCAGAAGTGGTGTGTTGATATCGGAGCTGAATATTTTGAAAGTAGCGCTAAGGAAGACATTGGTGTGGATAAAACCTTCCACAGCGCAGCCCGAGCAGCCCTGCACTTAAAAGTCACCATGTGGAGAATGGAGGAGACGTCCAGATTACAAACACACAACAGGACAAGAAGCAAAGAACTAAAAAATGCTATTGTTGAAGCAACAACTCCTGCACTACTGTTCTCTATTACCAGTATTACAACAAGTGAAGAGAATAATCAAAGacattaaaatcaaataaaccgACAGCATATCTAAA
>TCONS_00006810
GACATTGGAGGCTGAAATGAAGCAAAGAGAAGTGTTGACTGCGATGAGCTCCTTTTTCTGAAGACAGCTTTGGTTATTTTTATCATGACTGAGTGGAACACACCACACTTGAAACTGATTCTTATCGGAAACTCTGGAGTGGGAAAATCTTCATTTATGACCCGATTTGTTGACCATCGATTTACTAATTTGTATCGTGCCACAATTGGGGTAGATTTCCTAACTAAAGAAATCACTGTTGATAGAAGACCAGTGATTCTTCAGATCTGGGACACTGCAGGCACAGAGAGGTTTCATTCCCTGGGTAGTTCATTATATCGTGGAGCTCAATGCTGCCTCCTAGTGTTTGATGTGACCTCGTCTGTCTCCTTTGAAGCGCTGGACGTCTGGAAGAAAGAGTTCCTGGTGCAGGCCTGTCCTTCAGACCCAGCTGCGTTCCCTTTTATTGTGCTCGGCAATAAAATCGACCTGGATCATCGTCAGgtgtcaACATCCAAAGCTCAGAAGTGGTGTGTTGATATCGGAGCTGAATATTTTGAAAGTAGCGCTAAGGAAGACATTGGTGTGGATAAAACCTTCCACAGCGCAGCCCGAGCAGCCCTGCAGTATCTTAAAAGTCACCATGTGGAGAATGGAGGAGACGTCCAGATTACAAACACACAACAGGACAAGAAGCAAAGAACTAAAAAATGCTATTGTTGAAGCAACAACTCCTGCACTACTGTTCTCTATTACCAGTATTACAACAAGTGAAGAGAATAATCAAAGacattaaaatcaaataaaccgACAGCATATCTAAAGCACTGGAGTTTATCCCAGCTGAAAAGTACCAAACAtacaaacagccaatcagaatgcacCAAGCTtgagcatttaaagcaacagaACTGTATTGTGATATTATAATATGCACAACAGTATTGTTTGTTGATGGTGTAATGTAGTTTATAGCTGACGATTATAGCGATAATTTTGTGAACAAAATATGTGCAAGCAAAGTTTTAATTGCATTAGCGATAATGAAAATGAGAGGAACGTTTGCATAATGGAGACAGTAAAATTAGTCACTAACTATAAAGTACACTACAggagaaaacatttaaataaaatgatgcaaTTTTTGAG

Function

symbol description
si:dkey-13a21.4 Predicted to enable GTP binding activity and GTPase activity. Predicted to be involved in endosome to lysosome transport and phagosome-lysosome fusion. Predicted to be active in late endosome; lysosome; and phagocytic vesicle. Is expressed in pronephric duct and ventral mesoderm.

GO:

id name namespace
GO:0090385 phagosome-lysosome fusion biological_process
GO:0008333 endosome to lysosome transport biological_process
GO:0005764 lysosome cellular_component
GO:0005770 late endosome cellular_component
GO:0045335 phagocytic vesicle cellular_component
GO:0003924 GTPase activity molecular_function
GO:0005525 GTP binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040724-163 Predicted to enable GTP binding activity and GTPase activity. Predicted to be involved in endosome to lysosome transport and phagosome-lysosome fusion. Predicted to be active in late endosome; lysosome; and phagocytic vesicle. Is expressed in pronephric duct and ventral mesoderm.

Ensembl:

ensembl_id ENSDARG00000026098

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00006809 False 802 mRNA 0.43 5 25430851 25435597
TCONS_00006810 True 1128 mRNA 0.40 5 25430851 25435922

Neighbor

gene id symbol gene type direction distance location
XLOC_003472 adnpa coding upstream 22215 25403561 ~ 25408636 (+)
XLOC_003471 si:dkeyp-97e7.9 coding upstream 33722 25388747 ~ 25397129 (+)
XLOC_003470 fam83d coding upstream 93930 25328199 ~ 25336921 (+)
XLOC_003469 top1l coding upstream 119174 25296366 ~ 25311677 (+)
XLOC_003468 cyldb coding upstream 139142 25276748 ~ 25291709 (+)
XLOC_003474 opn1sw2 coding downstream 23775 25459697 ~ 25475403 (+)
XLOC_003475 opn1lw1 coding downstream 41721 25477643 ~ 25480037 (+)
XLOC_003476 opn1lw2 coding downstream 45124 25481046 ~ 25483206 (+)
XLOC_003477 gnl3l coding downstream 49852 25485774 ~ 25502491 (+)
XLOC_003478 tfe3b coding downstream 68293 25504215 ~ 25519837 (+)
XLOC_003369 CR854846.2 misc upstream 9307769 16122786 ~ 16123082 (+)
XLOC_003318 CR450764.6 misc upstream 12718855 12711700 ~ 12711996 (+)
XLOC_003317 CR450764.16 misc upstream 12736588 12693967 ~ 12694263 (+)
XLOC_003316 CR450764.11 misc upstream 12745252 12685304 ~ 12685599 (+)
XLOC_003315 CR450764.18 misc upstream 12750823 12679732 ~ 12680028 (+)
XLOC_003467 NA non-coding upstream 164616 25256812 ~ 25266235 (+)
XLOC_003466 NA non-coding upstream 202656 25181857 ~ 25228195 (+)
XLOC_003463 NA non-coding upstream 370753 25059462 ~ 25060098 (+)
XLOC_003447 BX072564.1 non-coding upstream 849737 24580579 ~ 24581114 (+)
XLOC_003444 AL831791.1 non-coding upstream 1251913 24178823 ~ 24178938 (+)
XLOC_003487 NA non-coding downstream 393448 25829370 ~ 25830337 (+)
XLOC_003488 CR318604.1 non-coding downstream 642025 26077947 ~ 26078061 (+)
XLOC_003489 NA non-coding downstream 752595 26188517 ~ 26196145 (+)
XLOC_003490 NA non-coding downstream 790160 26226082 ~ 26234069 (+)
XLOC_003497 NA non-coding downstream 1267035 26702957 ~ 26709080 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000306_03081487_03082695 NA coding CI01000306 null 3080835 ~ 3084309 (+)