XLOC_003454 (rabif)


Basic Information

Item Value
gene id XLOC_003454
gene name rabif
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 24815667 ~ 24817637 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00006760
agacggcgtttgtgtgtggagtttgcctgttctctccatgttcgcgtgggtttcctccgtgtgctgtGCAGGttatttggTGTCTTACTAACATGGATGACAGTAAACCGACCTCCTCTCCCGAGGGACCCGTAGACCCCTCTCTCGTGTCAGAAGATGGCAAAAATGTCAAAGCTGTTTTGTGCCAGAGATGTGGATCCAAAGTGCTCTGTCCAGGCATGGCAGTCTTTGCAGAAAAAGAGCTGTTTCTTCCTTCGATGAGAAAGAAAACTTCCATTGGTCAGTCAGACGGGACGTTGGATGGGGACACCTTAATGGCTCACTGGCTGGTTGATGACATGTACACATTTGAGAATGTGGGCTTCACAAAAGATGTAGGCAAAGTCAAGTATCTTATTTGTGCAGATTGCGAGATCGGACCTATCGGTTGGCATTGCTTAGATGATAAGAAGAGTTTCTATGTGGCATTGGACAGGGTGAACCATGAATAGAGCACTCACTGAAGGCACTGTACGGAAAATTGTATGCTATTTGATTATATAActtaaatgtcttttttaatgCAAGTCCTGATTTAGTTCTTTTTGGTGAGTTCAGATACATGTGATGTTTTTAGGGTTTTTTGTTCTCACCAAACTATGTTAACATGTTCAACTGTACTTGTCTTTCATAAAGGTCTGCCATAGATAAATGGAGACATTTCTTATAAACATTCCTAATCACAAGGTCTTTTCCATACCTCTTATCTCTCTATTACTTTTCATACTTCTTCAgccatgttttgtttgtttgtttgaaaaggAAACGTCAATGTTAGTTAAAATGTATTcttgaacattattgagttttgtaaaataaaagactgaaaaatgaataaaa
>TCONS_00006761
ggtttattccgctatggtgaccccagattaattaagggacacAGCCGAAAAGAATGTGAATGAATTACCTTAAGGGAGAATTTAAGTGTCTTACTAACATGGATGACAGTAAACCGACCTCCTCTCCCGAGGGACCCGTAGACCCCTCTCTCGTGTCAGAAGATGGCAAAAATGTCAAAGCTGTTTTGTGCCAGAGATGTGGATCCAAAGTGCTCTGTCCAGGCATGGCAGTCTTTGCAGAAAAAGAGCTGTTTCTTCCTTCGATGAGAAAGAAAACTTCCATTGGTCAGTCAGACGGGACGTTGGATGGGGACACCTTAATGGCTCACTGGCTGGTTGATGACATGTACACATTTGAGAATGTGGGCTTCACAAAAGATGTAGGCAAAGTCAAGTATCTTATTTGTGCAGATTGCGAGATCGGACCTATCGGTTGGCATTGCTTAGATGATAAGAAGAGTTTCTATGTGGCATTGGACAGGGTGAACCATGAATAGAGCACTCACTGAAGGCACTGTACGGAAAATTGTATGCTATTTGATTATATAActtaaatgtcttttttaatgCAAGTCCTGATTTAGTTCTTTTTGGTGAGTTCAGATACATGTGATGTTTTTAGGGTTTTTTGTTCTCACCAAACTATGTTAACATGTTCAACTGTACTTGTCTTTCATAAAGGTCTGCCATAGATAAATGGAGACATTTCTTATAAACATTCCTAATCACAAGGTCTTTTCCATACCTCTTATCTCTCTATTACTTTTCATACTTCTTCAgccatgttttgttt
>TCONS_00006762
AAATGGAGTCTTGTGTTATTCTGAGCGGAACGTAAAGTCCGTATCTTGCGTTGATCCGGTCTGCTTTAGCAGTTGCGCCAATATTAGCAGTAGCAAACACTTGTCCGCTAGTTTTTCCAACTTATGTTTATAATTGTGTATGAACACAAATTACCAAATTAGTACTTAACGTTTTGTAGACTTTATTTGGGTAATACGTCTGTATTAAGGATCAGTTTACTTCATGGTCTGACCCAGAGTGTCTTACTAACATGGATGACAGTAAACCGACCTCCTCTCCCGAGGGACCCGTAGACCCCTCTCTCGTGTCAGAAGATGGCAAAAATGTCAAAGCTGTTTTGTGCCAGAGATGTGGATCCAAAGTGCTCTGTCCAGGCATGGCAGTCTTTGCAGAAAAAGAGCTGTTTCTTCCTTCGATGAGAAAGAAAACTTCCATTGGTCAGTCAGACGGGACGTTGGATGGGGACACCTTAATGGCTCACTGGCTGGTTGATGACATGTACACATTTGAGAATGTGGGCTTCACAAAAGATGTAGGCAAAGTCAAGTATCTTATTTGTGCAGATTGCGAGATCGGACCTATCGGTTGGCATTGCTTAGATGATAAGAAGAGTTTCTATGTGGCATTGGACAGGGTGAACCATGAATAGAGCACTCACTGAAGGCACTGTACGGAAAATTGTATGCTATTTGATTATATAActtaaatgtcttttttaatgCAAGTCCTGATTTAGTTCTTTTTGGTGAGTTCAGATACATGTGATGTTTTTAGGGTTTTTTGTTCTCACCAAACTATGTTAACATGTTCAACTGTACTTGTCTTTCATAAAGGTCTGCCATAGATAAATGGAGACATTTCTTATAAACATTCCTAATCACAAGGTCTTTTCCATACCTCTTATCTCTCTATTACTTTTCATACTTCTTCAgccatgttttgtttgtttgtttgaaaaggAAACGTCAATGTTAGTTAAAATGTATTcttgaacattattgagttttgtaaaataaaagactgaaaaatgaataaaatataactcTTAGCTGTTCTCAAAA
>TCONS_00006763
GAATGATGCTGTATTGGCTGATTTGATAAACTGTGTGTATTCAATTAATGTATGTTCAATTGAGGTATTGATTTCAATTTCCATACAGTGTCTTACTAACATGGATGACAGTAAACCGACCTCCTCTCCCGAGGGACCCGTAGACCCCTCTCTCGTGTCAGAAGATGGCAAAAATGTCAAAGCTGTTTTGTGCCAGAGATGTGGATCCAAAGTGCTCTGTCCAGGCATGGCAGTCTTTGCAGAAAAAGAGCTGTTTCTTCCTTCGATGAGAAAGAAAACTTCCATTGGTCAGTCAGACGGGACGTTGGATGGGGACACCTTAATGGCTCACTGGCTGGTTGATGACATGTACACATTTGAGAATGTGGGCTTCACAAAAGATGTAGGCAAAGTCAAGTATCTTATTTGTGCAGATTGCGAGATCGGACCTATCGGTTGGCATTGCTTAGATGATAAGAAGAGTTTCTATGTGGCATTGGACAGGGTGAACCATGAATAGAGCACTCACTGAAGGCACTGTACGGAAAATTGTATGCTATTTGATTATATAActtaaa

Function

symbol description
rabif Predicted to enable guanyl-nucleotide exchange factor activity and zinc ion binding activity. Predicted to be involved in post-Golgi vesicle-mediated transport. Predicted to act upstream of or within protein transport and small GTPase mediated signal transduction. Predicted to be active in cytosol and membrane. Orthologous to human RABIF (RAB interacting factor).

GO:

id name namespace
GO:0006892 post-Golgi vesicle-mediated transport biological_process
GO:0007264 small GTPase mediated signal transduction biological_process
GO:0005829 cytosol cellular_component
GO:0016020 membrane cellular_component
GO:0005085 guanyl-nucleotide exchange factor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-040718-216 Predicted to enable guanyl-nucleotide exchange factor activity and zinc ion binding activity. Predicted to be involved in post-Golgi vesicle-mediated transport. Predicted to act upstream of or within protein transport and small GTPase mediated signal transduction. Predicted to be active in cytosol and membrane. Orthologous to human RABIF (RAB interacting factor).

Ensembl:

ensembl_id ENSDARG00000002690

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00006760 False 879 mRNA 0.40 3 24815667 24817613
TCONS_00006761 False 793 mRNA 0.40 3 24815927 24817521
TCONS_00006762 False 1062 mRNA 0.38 3 24816238 24817637
TCONS_00006763 True 557 mRNA 0.42 2 24816516 24817283

Neighbor

gene id symbol gene type direction distance location
XLOC_003453 adipor1a coding upstream 474 24800156 ~ 24815193 (+)
XLOC_003452 cyb5r1 coding upstream 15992 24786378 ~ 24799675 (+)
XLOC_003451 rnpep coding upstream 32549 24758967 ~ 24783118 (+)
XLOC_003450 inavab coding upstream 58851 24716837 ~ 24756816 (+)
XLOC_003449 gpr25 coding upstream 111230 24703108 ~ 24704437 (+)
XLOC_003455 kdm5ba coding downstream 1687 24819324 ~ 24851464 (+)
XLOC_003456 ipo9 coding downstream 34034 24851671 ~ 24876621 (+)
XLOC_003457 shisa4 coding downstream 60183 24877820 ~ 24888595 (+)
XLOC_003458 lmod1b coding downstream 71533 24889170 ~ 24894907 (+)
XLOC_003459 timm17a coding downstream 82486 24900123 ~ 24906264 (+)
XLOC_003369 CR854846.2 misc upstream 8692585 16122786 ~ 16123082 (+)
XLOC_003318 CR450764.6 misc upstream 12103671 12711700 ~ 12711996 (+)
XLOC_003317 CR450764.16 misc upstream 12121404 12693967 ~ 12694263 (+)
XLOC_003316 CR450764.11 misc upstream 12130068 12685304 ~ 12685599 (+)
XLOC_003315 CR450764.18 misc upstream 12135639 12679732 ~ 12680028 (+)
XLOC_003447 BX072564.1 non-coding upstream 234553 24580579 ~ 24581114 (+)
XLOC_003442 NA non-coding upstream 505022 24120291 ~ 24310645 (+)
XLOC_003444 AL831791.1 non-coding upstream 636729 24178823 ~ 24178938 (+)
XLOC_003443 NA non-coding upstream 638016 24176418 ~ 24177651 (+)
XLOC_003441 FP102969.1 non-coding upstream 664450 24116083 ~ 24151217 (+)
XLOC_003463 NA non-coding downstream 241825 25059462 ~ 25060098 (+)
XLOC_003466 NA non-coding downstream 364220 25181857 ~ 25228195 (+)
XLOC_003467 NA non-coding downstream 439175 25256812 ~ 25266235 (+)
XLOC_003487 NA non-coding downstream 1011733 25829370 ~ 25830337 (+)
XLOC_003488 CR318604.1 non-coding downstream 1260310 26077947 ~ 26078061 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000306_02678050_02678704 RABIF coding CI01000306 null 2678050 ~ 2679064 (+)