XLOC_017432 (snx3)


Basic Information

Item Value
gene id XLOC_017432
gene name snx3
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 32406011 ~ 32432871 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00034650
GTTGGCATGTCACATGTCAGCTGTTCCTCAGCTGATCGGAAGTACAATCGATAGCTGCTTGTTTGCTCAAACCTGTAACGGGAAGCAATGGCTGAGGCCATAGCAGATACGAGAAGGCTGTATACTAAACCACAAAACCTGAATGACGCGTACGGGCCACCGAGTAACTTTCTAGAAATTGATGTTACCAACCCCGAAACAGTTGGCGTCGGTCGGAACAGGTTCACGACATATGAGATCAAACTGAAGACAAACCTCCCCATCTTCAAGCTGAAGGAGTCACGTGTCCGGAGGAGATACAGCGACTTTGAGTGGCTGAGAGGAGAGCTGGAGAGGGAAAGCAAGGTGGTGGTTCCTCCTCTTCCTGGAAAAGCTCTGTTCAGGCAGCTTCCTTTCCGTGGGGATGATGGTATATTTGATGACTCTTTTATTGAGGAACGGCGGCAAGGGCTGGAACAGTTCCTCAACAAAGTTGCTGGTCATCCATTGGCCCAAAATGAGCGCTGCCTGCACATGTTCCTACAGGATGAGTCTGTGGATAAAAACTACACCCCTTCCAAAATTAGACAAGCCTAAACTGGTCTGGACTCTACACACAcgttcacaaacaaacacaaaaaaacatggcCCATAAGCAATAAGAAAGGTTCAAATCATCCTTTATCGGAAAAGATTGTGAGCATGAAGCATAGGGCGTCCAAAACATTTACCTCGGCAGAAAATGAGAcgtaaaaaatgatttaaaacatacTCGAGAATTAGTCATGTTGTATCCCTTCACTTCTTTGATCTGTTCTTTTAGATTGTTTCAGTCTTTTTGCTCCGATTTCTCAAtctttaatgttaatattaaccACTTTTACGTCTGATCCAACACGTCCTTATTGGTAATTAATCGTGGTTAACAATTATTTATGGTAGTTTGTCTTAAAGGCTCCACTAACTTTGATATTTCcagtatcaaacaaaacaaaaaccaaataACTGTCACGGTTATGCAAGCACTATATCACACACACATTGGCATCCCTGTGTTATCGCTACTGCCTACTTGTGTTGCTTTTAATGCTGAAGAACACATACAGCGGCTCACCGTCCAGGATGCACTTAATTGGGAACCTTCTTCATTTGTGGTGGTTAAATGTGCGCTGTGTCCTACACAAGCCTGTTTTTACTGTGATGGAGTGGCACAGAAACACAGAGAGTGCTGTCTATGATGCATGTTTTCAGATTTGTATACTGCTGTGCCATTGTTTTGTTTATGAGAATTTTCCAATAAAACGGATCAAACACA
>TCONS_00034651
GTAACGGGAAGCAATGGCTGAGGCCATAGCAGATACGAGAAGGCTGTATACTAAACCACAAAACCTGAATGACGCGTACGGGCCACCGAGTAACTTTCTAGAAATTGATGTTACCAACCCCGAAACAGTTGGCGTCGGTCGGAACAGGTTCACGACATATGAGATCAAACTGAAGACAAACCTCCCCATCTTCAAGCTGAAGGAGTCACGTGTCCGGAGGAGATACAGCGACTTTGAGTGGCTGAGAGGAGAGCTGGAGAGGGAAAGCAAGGTGGTGGTTCCTCCTCTTCCTGGAAAAGCTCTGTTCAGGCAGCTTCCTTTCCGTGGGGATGATGGTATATTTGATGACTCTTTTATTGAGGAACGGCGGCAAGGGCTGGAACAGTTCCTCAACAAGTGAGTTACAAGACCAACCTCACTATACAAACATTCACTTCTACCTTCACATTTAGATCAActatataaacatgtaaaacaattaatcaggtggttttaatacacaattacagaatatgttttttcaccatttataggttttacactgatgtatatattgcaattttgaatttaaagcaatttaatagttacaaaactaaaatgaagtaaCACTTTAATTCTTTGATAGCTGaaaaagaatatttgaacctatcggtttacaataaactaatgccctgtttttctaggctttattggtgataatgttCAGGAATGTTGGACAATTATTGCCTTTTGAGCATATTTGTAGAGGACAGTATAATAAGTGAATAAGGAGTgagcttaataaaaaaaatctgtatttttttgtaaatcattaatattttaataaactataataggtagaactgtccaaGATTAACAAAAGCAAGTAATGCATCA
>TCONS_00034652
GAATTCTGGAGTGCAAGCTTCATTTAGCACTTTTTGCACAATGACATATCCACACCCAAAAACTGACTCATGAGCCcatgctgtttatttacaactttatgcAGGCTGCATCTTATATAAAAAGCACAGACAAACCTCCCCATCTTCAAGCTGAAGGAGTCACGTGTCCGGAGGAGATACAGCGACTTTGAGTGGCTGAGAGGAGAGCTGGAGAGGGAAAGCAAGGTGGTGGTTCCTCCTCTTCCTGGAAAAGCTCTGTTCAGGCAGCTTCCTTTCCGTGGGGATGATGGTATATTTGATGACTCTTTTATTGAGGAACGGCGGCAAGGGCTGGAACAGTTCCTCAACAAAGTTGCTGGTCATCCATTGGCCCAAAATGAGCGCTGCCTGCACATGTTCCTACAGGATGAGTCTGTGGATAAAAACTACACCCCTTCCAAAATTAGACAAGCCTAAACTGGTCTGGACTCTACACACAcgttcacaaacaaacacaaaaaaacatggcCCATAAGCAATAAGAAAGGTTCAAATCATCCTTTATCGGAAAAGATTGTGAGCATGAAGCATAGGGCGTCCAAAACATTTACCTCGGCAGAAAATGAGAcgtaaaaaatgatttaaaacatacTCGAGAATTAGTCATGTTGTATCCCTTCACTTCTTTGATCTGTTCTTTTAGATTGTTTCAGTCTTTTTGCTCCGATTTCTCAAtctttaatgttaatattaaccACTTTTACGTCTGATCCAACACGTCCTTATTGGTA

Function

symbol description
snx3 Predicted to enable phosphatidylinositol-3-phosphate binding activity. Involved in heme biosynthetic process. Acts upstream of or within erythrocyte differentiation and hemoglobin biosynthetic process. Predicted to be located in endosome and phagocytic vesicle. Predicted to be part of retromer complex. Predicted to be active in early endosome membrane. Is expressed in digestive system; hematopoietic system; and vascular endothelium. Human ortholog(s) of this gene implicated in syndromic microphthalmia 8. Orthologous to human SNX3 (sorting nexin 3).

GO:

id name namespace
GO:0033157 regulation of intracellular protein transport biological_process
GO:0034499 late endosome to Golgi transport biological_process
GO:0030218 erythrocyte differentiation biological_process
GO:0042541 hemoglobin biosynthetic process biological_process
GO:0032456 endocytic recycling biological_process
GO:0006783 heme biosynthetic process biological_process
GO:0031901 early endosome membrane cellular_component
GO:0030904 retromer complex cellular_component
GO:0035091 phosphatidylinositol binding molecular_function
GO:1901981 phosphatidylinositol phosphate binding molecular_function
GO:0032266 phosphatidylinositol-3-phosphate binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-921 Predicted to enable phosphatidylinositol-3-phosphate binding activity. Involved in heme biosynthetic process. Acts upstream of or within erythrocyte differentiation and hemoglobin biosynthetic process. Predicted to be located in endosome and phagocytic vesicle. Predicted to be part of retromer complex. Predicted to be active in early endosome membrane. Is expressed in digestive system; hematopoietic system; and vascular endothelium. Human ortholog(s) of this gene implicated in syndromic microphthalmia 8. Orthologous to human SNX3 (sorting nexin 3).

Ensembl:

ensembl_id ENSDARG00000008678

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00034650 False 1294 mRNA 0.43 4 32406011 32432871
TCONS_00034651 False 876 mRNA 0.38 3 32406085 32430380
TCONS_00034652 True 770 processed_transcript 0.42 4 32408887 32432467

Neighbor

gene id symbol gene type direction distance location
XLOC_017431 BX927123.1 coding upstream 3651 32270907 ~ 32402360 (+)
XLOC_017430 BX842669.1 coding upstream 165042 32231609 ~ 32240969 (+)
XLOC_017429 sesn1 coding upstream 174854 32152355 ~ 32231157 (+)
XLOC_017428 cd164 coding upstream 266949 32118559 ~ 32139062 (+)
XLOC_017427 BX649312.1 coding upstream 415558 31985461 ~ 31990453 (+)
XLOC_017433 CU138515.1 coding downstream 34015 32466886 ~ 32470454 (+)
XLOC_017434 ostm1 coding downstream 40713 32473584 ~ 32491036 (+)
XLOC_017435 si:ch73-257c13.2 coding downstream 64389 32497260 ~ 32499292 (+)
XLOC_017436 sec63 coding downstream 68877 32501748 ~ 32521973 (+)
XLOC_017437 scml4 coding downstream 90705 32523576 ~ 32576703 (+)
XLOC_017426 BX927258.1 non-coding upstream 682514 31722252 ~ 31723497 (+)
XLOC_017425 BX511244.1 non-coding upstream 1018840 31387055 ~ 31387171 (+)
XLOC_017420 NA non-coding upstream 1423441 30975034 ~ 30982570 (+)
XLOC_017440 NA non-coding downstream 394549 32827420 ~ 32850103 (+)
XLOC_017441 NA non-coding downstream 624913 33057784 ~ 33058544 (+)
XLOC_017455 BX296562.2 non-coding downstream 1526699 33959570 ~ 33975292 (+)
XLOC_017471 BX279523.2 non-coding downstream 2228684 34661555 ~ 34663198 (+)

Expression


Co-expression Network