Rftn2 (raftlin family member 2) - Rat Genome Database

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Gene: Rftn2 (raftlin family member 2) Rattus norvegicus
Analyze
Symbol: Rftn2
Name: raftlin family member 2
RGD ID: 1307304
Description: Predicted to act upstream of or within dsRNA transport and response to exogenous dsRNA. Predicted to be located in plasma membrane. Orthologous to human RFTN2 (raftlin family member 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3H-1,2-dithiole-3-thione; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC363231; raftlin-2; RGD1307304; similar to 3222401M22Rik protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8964,146,062 - 64,202,342 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl964,124,865 - 64,215,186 (-)EnsemblGRCr8
mRatBN7.2956,651,617 - 56,707,830 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl956,630,460 - 56,707,810 (-)EnsemblmRatBN7.2
Rnor_6.0961,754,859 - 61,810,992 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl961,756,428 - 61,810,417 (-)Ensemblrn6Rnor6.0
Rnor_5.0961,438,131 - 61,494,253 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4953,958,426 - 54,012,631 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera954,133,122 - 54,189,029 (-)NCBICelera
RGSC_v3.1954,085,916 - 54,141,464 (-)NCBI
Cytogenetic Map9q31NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21266579  


Genomics

Comparative Map Data
Rftn2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8964,146,062 - 64,202,342 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl964,124,865 - 64,215,186 (-)EnsemblGRCr8
mRatBN7.2956,651,617 - 56,707,830 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl956,630,460 - 56,707,810 (-)EnsemblmRatBN7.2
Rnor_6.0961,754,859 - 61,810,992 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl961,756,428 - 61,810,417 (-)Ensemblrn6Rnor6.0
Rnor_5.0961,438,131 - 61,494,253 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4953,958,426 - 54,012,631 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera954,133,122 - 54,189,029 (-)NCBICelera
RGSC_v3.1954,085,916 - 54,141,464 (-)NCBI
Cytogenetic Map9q31NCBI
RFTN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382197,568,224 - 197,675,587 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2197,568,224 - 197,676,051 (-)Ensemblhg38GRCh38
GRCh372198,432,948 - 198,540,311 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362198,143,773 - 198,248,829 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342198,261,033 - 198,366,090NCBI
Celera2192,191,399 - 192,296,503 (-)NCBICelera
Cytogenetic Map2q33.1NCBI
HuRef2190,287,828 - 190,392,953 (-)NCBIHuRef
CHM1_12198,441,373 - 198,546,392 (-)NCBICHM1_1
T2T-CHM13v2.02198,051,829 - 198,159,265 (-)NCBIT2T-CHM13v2.0
Rftn2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39155,209,318 - 55,267,128 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl155,209,318 - 55,265,941 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38155,170,159 - 55,227,063 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl155,170,159 - 55,226,782 (-)Ensemblmm10GRCm38
MGSCv37155,227,003 - 55,283,626 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36155,114,704 - 55,171,593 (-)NCBIMGSCv36mm8
Celera155,690,287 - 55,746,933 (-)NCBICelera
Cytogenetic Map1C1.2NCBI
cM Map128.05NCBI
Rftn2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554032,983,270 - 3,030,643 (+)Ensembl
ChiLan1.0NW_0049554032,982,753 - 3,030,594 (+)NCBIChiLan1.0ChiLan1.0
RFTN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213100,196,849 - 100,298,620 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B100,211,841 - 100,313,499 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B84,826,173 - 84,927,820 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B202,719,578 - 202,819,996 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B202,719,578 - 202,819,996 (-)EnsemblpanPan2panpan1.1
RFTN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1377,074,597 - 7,169,512 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl377,074,586 - 7,152,714 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha378,020,814 - 8,100,133 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0376,964,973 - 7,044,415 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl376,964,975 - 7,030,868 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1376,963,590 - 7,042,959 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0376,930,077 - 7,009,755 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0376,953,877 - 7,033,880 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Rftn2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303155,216,284 - 155,281,489 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365061,561,801 - 1,621,789 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365061,561,910 - 1,620,476 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RFTN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15101,433,845 - 101,500,880 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.115101,433,839 - 101,500,926 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215112,604,324 - 112,613,654 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RFTN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11083,082,681 - 83,168,828 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1083,079,215 - 83,168,814 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666040116,280,880 - 116,363,395 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rftn2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248892,644,622 - 2,699,245 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248892,632,246 - 2,700,356 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Rftn2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v14129,601,338 - 129,656,068 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Rftn2
248 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:74
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000020910, ENSRNOT00000058841
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)956047863101047863Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)94002992585029925Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)93125043268875676Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94445825699506504Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)92956766474567664Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)94445825685262605Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92956766483835942Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)94172029586720295Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)93125043265651574Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1581517Bp284Blood pressure QTL 284arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)93922018684220186Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)94002992585029925Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)95746049778547958Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)95450650499506504Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93496059079960590Rat

Markers in Region
RH128200  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2956,653,195 - 56,653,345 (+)MAPPERmRatBN7.2
Rnor_6.0961,756,391 - 61,756,540NCBIRnor6.0
Rnor_5.0961,439,668 - 61,439,817UniSTSRnor5.0
RGSC_v3.4953,958,604 - 53,958,753UniSTSRGSC3.4
Celera954,134,654 - 54,134,803UniSTS
RH 3.4 Map9479.57UniSTS
Cytogenetic Map9q31UniSTS
BE115627  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2956,706,651 - 56,706,810 (+)MAPPERmRatBN7.2
Rnor_6.0961,809,842 - 61,810,000NCBIRnor6.0
Rnor_5.0961,493,119 - 61,493,277UniSTSRnor5.0
RGSC_v3.4954,012,056 - 54,012,214UniSTSRGSC3.4
Celera954,187,940 - 54,188,098UniSTS
RH 3.4 Map9480.1UniSTS
Cytogenetic Map9q31UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
14 12 67 157 91 90 59 49 59 6 309 149 11 136 79 92 31 15 15

Sequence


Ensembl Acc Id: ENSRNOT00000020910   ⟹   ENSRNOP00000020910
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl964,124,865 - 64,201,827 (-)Ensembl
mRatBN7.2 Ensembl956,630,460 - 56,707,810 (-)Ensembl
Rnor_6.0 Ensembl961,756,428 - 61,810,417 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000095669   ⟹   ENSRNOP00000076615
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl964,146,635 - 64,201,827 (-)Ensembl
mRatBN7.2 Ensembl956,651,651 - 56,707,810 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000152017   ⟹   ENSRNOP00000102291
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl964,128,362 - 64,215,186 (-)Ensembl
RefSeq Acc Id: XM_343571   ⟹   XP_343572
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8964,146,062 - 64,202,342 (-)NCBI
mRatBN7.2956,651,617 - 56,707,829 (-)NCBI
Rnor_6.0961,754,859 - 61,810,992 (-)NCBI
Rnor_5.0961,438,131 - 61,494,253 (-)NCBI
RGSC_v3.4953,958,426 - 54,012,631 (-)RGD
Sequence:
RefSeq Acc Id: XP_343572   ⟸   XM_343571
- Sequence:
Ensembl Acc Id: ENSRNOP00000020910   ⟸   ENSRNOT00000020910
Ensembl Acc Id: ENSRNOP00000076615   ⟸   ENSRNOT00000095669
Ensembl Acc Id: ENSRNOP00000102291   ⟸   ENSRNOT00000152017

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZII1-F1-model_v2 AlphaFold D3ZII1 1-496 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307304 AgrOrtholog
BioCyc Gene G2FUF-27530 BioCyc
Ensembl Genes ENSRNOG00000015594 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020910.9 UniProtKB/TrEMBL
  ENSRNOT00000095669 ENTREZGENE
  ENSRNOT00000095669.2 UniProtKB/TrEMBL
  ENSRNOT00000152017.1 UniProtKB/TrEMBL
InterPro Raftlin UniProtKB/TrEMBL
KEGG Report rno:363231 UniProtKB/TrEMBL
NCBI Gene 363231 ENTREZGENE
PANTHER PTHR17601 UniProtKB/TrEMBL
  RAFTLIN-2 UniProtKB/TrEMBL
Pfam Raftlin UniProtKB/TrEMBL
PhenoGen Rftn2 PhenoGen
RatGTEx ENSRNOG00000015594 RatGTEx
UniProt A0A8I5XV77 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LKZ9_RAT UniProtKB/TrEMBL
  A6IP13 ENTREZGENE, UniProtKB/TrEMBL
  A6IP14 ENTREZGENE, UniProtKB/TrEMBL
  D3ZII1_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Rftn2  raftlin family member 2  RGD1307304_predicted  similar to 3222401M22Rik protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1307304_predicted  similar to 3222401M22Rik protein (predicted)  LOC363231_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC363231_predicted  similar to 3222401M22Rik protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL