XLOC_002194 (rnft1)


Basic Information

Item Value
gene id XLOC_002194
gene name rnft1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 28160265 ~ 28169169 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00004215
AGGTCAGATTAGCAGATAGCTCCCGGAACAATGTCAGACTGAAACTAAACTCAGCCGATGAGCTGTTTtgcttattatatatttaattttatgttgttttggtcTTCAAACGGCACTACAGGACGTAAAATGGAGATCTGTGCTTTATCATGAAACTCCGTGCGCAGTTTGACAGAGGAACATATAGCGAGTCCAAAGGATCGTTTAAACTGAGGGATTCACTTGATCCGATGCAACCGGAGCCGAGCTCTCGGGAAGGGAACGGGCTGTCGTTAACCCTCCAGCCGGAGCTCCTCGCCCGAATGCCCGGAGCTGGGAGCTCCAGCGGGACGGAAACAGGCGAGGACGTCCGGGTGCCTATGGGCAGCTCTTCGGGATCGACGAATGGACGTGGCGCGACCTCACGGAGAATGAGAACAGCGAGTCACAGCCACTCCCACACCCATGGACACGGGCACAGCCACGAGCACGAGTCCGACAGCGGAGAGTCTGACCTGGAATCCGGAGAATCCAGCAGCTCGATATCGGAGCTTCGCTACCTCCTGCGCTGGCTTAAGAAAAGTCTGCCTTTTATAGTTATTCTCTGCGCAAAACTAGTGATTCAACATGCTCTGGGTCTGGCTGTTGCTGTTGGTCTGTTTACCACGTTTATGTATGTCAACAAAAGCATTCAAACGCAAGTGTTTCTCCATgACCGTAGGACGAATCTGCATTGTGCCTGGCTTCTGCTGTTCCTCACATCCTCCAGTCTCCTTGTCTTCTACACTTTTCACACTCAGTCACTTTATCGCTGCCTGTTTTTTGCCAACGCCACCATAGATTATCATAACTTCTGGGAGGTTTTATGGAGCGTTGGTGTGACCAACTTCATCCTGAAGTTTATCTTCATGGGATTCAAGTGTCTTATTCTCCTCGTCCCGTGTCCACTCATGACATACAGACGAAGGGGTCAGTGGTACATGCTGATAGAGGAAGTGGGTCAGTTGTATCAGGTTATCGCTCCTGTCCCGCTCTGGTTCCGCTATCTGGTCAGCTATGATGAGATGGACACCTCTGTCGGTCTGACTCTGGGAATCTTGCTTGCCTTGCTCTACCTCATAATGAAGCTATTGGCACTGTACGGACTGTCAGGATCACTTCAGAAAACACTACGGACGTTTTTCAGCCCTGAGGTAAACGGAGCTCCAGCCAGTCCTGCTCAGATTCGAGAGGCAGGAGACATTTGTCCCATCTGTCAGGCGGATTTTAAGCAGCCTCGGGTCCTCGTGTGTCAGCACATCTTCTGTGAGGAGTGTATAGCCCAGTGGCTCAACCAGGAGCGCACCTGTCCTCTCTGCCGCACCGTCATCACAGACAAGGTGCACAAGTGGAAAGACGGCGCAACATCTGCTCATTTACAAATCTACTAAACACAGACAGGAGAAGCACAACAGACAACCAGCAGATCTACACAACTGTTCCTCTCACACATCTCCACTGAGCAAACAGCACTTGTTAGAAGACAGCAGTCAACACTTTTCTTTAGCTTGTCTGAGGGATGAGTGCATTCACCAGctcttgtattactattattatacatACAGAACTCCtcattgtttaaatgtttataatttatatttatctttGTGTTCTTACTAATTTCCTCATTTACCGTGGGGACAAAAACAGTAGATTtctcattattttatttgttaggaAAACTTACAAATAGAGTACAGGAAATGTATTTTTGTCTCCtaaaattgattttaattttCACAGATAGTGGGGCTGTTTTGTAACTAAACTCGAACACATTTACGAGTCCTATCATGAGGAGTTTTGAACAATTTAGGTTATTTTTTGGTGAAGTATTCAGTTTTCTTCGGTTTTAATCTGAATGTGAGGTAATTGCACATGAACTACTGATTTATCAAAAGGTGTAGCATTAGGATTTTATAACCATGCGAATTTTGTGAGTGAACATCAAGTAATGGCTTTGTGAATGTTACGTTTTTAAAATTCAAGCCTTTCACAGATACATGGTATTTTTCTAATCATGTTGCGCTTGCGTTGTAATAAACCAAAGTGTTAAAGAAACATCTATTTTAGTACCATCATACAGTATGCAGTTACATCTGGACTTTTTATCCAGCATATTTCCATAAACGACCAAATAAACTTTTCAGATTTGACTAATAACAA
>TCONS_00004216
GTCAGACTGAAACTAAACTCAGCCGATGAGCTGTTTtgcttattatatatttaattttatgttgttttggtcTTCAAACGGCACTACAGGACGTAAAATGGAGATCTGTGCTTTATCATGAAACTCCGTGCGCAGTTTGACAGAGGAACATATAGCGAGTCCAAAGGATCGTTTAAACTGAGGGATTCACTTGATCCGATGCAACCGGAGCCGAGCTCTCGGGAAGGGAACGGGCTGTCGTTAACCCTCCAGCCGGAGCTCCTCGCCCGAATGCCCGGAGCTGGGAGCTCCAGCGGGACGGAAACAGGCGAGGACGTCCGGGTGCCTATGGGCAGCTCTTCGGGATCGACGAATGGACGTGGCGCGACCTCACGGAGAATGAGAACAGCGAGTCACAGCCACTCCCACACCCATGGACACGGGCACAGCCACGAGCACGAGTCCGACAGCGGAGAGTCTGACCTGGAATCCGGAGAATCCAGCAGCTCGATATCGGAGCTTCGCTACCTCCTGCGCTGGCTTAAGAAAAGTCTGCCTTTTATAGTTATTCTCTGCGCAAAACTAGTGATTCAACATGCTCTGGGTCTGGCTGTTGCTGTTGGTCTGTTTACCACGTTTATGTATGTCAACAAAAGCATTCAAACGCAAGTGTTTCTCCATGTAAGTTCTCAATATTTTGGACAATGTATCAGTGCTTGCCAATCCTCTCCTATGGT

Function

symbol description
rnft1 Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in positive regulation of ERAD pathway. Predicted to be located in endoplasmic reticulum membrane. Predicted to be integral component of membrane. Predicted to be active in endoplasmic reticulum. Orthologous to human RNFT1 (ring finger protein, transmembrane 1).

GO:

id name namespace
GO:0016567 protein ubiquitination biological_process
GO:0005783 endoplasmic reticulum cellular_component
GO:0005789 endoplasmic reticulum membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0016740 transferase activity molecular_function
GO:0046872 metal ion binding molecular_function

KEGG:

id description
ko04121 Ubiquitin system

ZFIN:

id description
ZDB-GENE-040426-2324 Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in positive regulation of ERAD pathway. Predicted to be located in endoplasmic reticulum membrane. Predicted to be integral component of membrane. Predicted to be active in endoplasmic reticulum. Orthologous to human RNFT1 (ring finger protein, transmembrane 1).

Ensembl:

ensembl_id ENSDARG00000015917

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00004215 False 2184 mRNA 0.45 9 28160265 28169169
TCONS_00004216 True 716 processed_transcript 0.51 3 28160297 28162247

Neighbor

gene id symbol gene type direction distance location
XLOC_002193 NA coding upstream 961283 27169126 ~ 27198982 (+)
XLOC_002192 cxadr coding upstream 1002025 27096043 ~ 27158240 (+)
XLOC_002191 ehd1b coding upstream 1067231 27068251 ~ 27093034 (+)
XLOC_002190 NA coding upstream 1095860 27061761 ~ 27064405 (+)
XLOC_002189 wdr74 coding upstream 1101279 27052642 ~ 27058986 (+)
XLOC_002195 NA coding downstream 34595 28203764 ~ 28246420 (+)
XLOC_002196 CU207388.1 coding downstream 83509 28252678 ~ 28252795 (+)
XLOC_002197 ptrh2 coding downstream 137580 28306749 ~ 28309317 (+)
XLOC_002198 si:ch211-222e20.4 coding downstream 259053 28428222 ~ 28431809 (+)
XLOC_002199 NA coding downstream 273740 28442909 ~ 28455085 (+)
XLOC_002181 NA non-coding upstream 1277126 26882702 ~ 26883139 (+)
XLOC_002175 NA non-coding upstream 1373480 26786369 ~ 26786785 (+)
XLOC_002174 CR545465.1 non-coding upstream 1388588 26766385 ~ 26771677 (+)
XLOC_002201 NA non-coding downstream 922068 29091237 ~ 29091601 (+)
XLOC_002205 FP102896.1 non-coding downstream 1163890 29333059 ~ 29333175 (+)

Expression


Co-expression Network