Slx4ip (SLX4 interacting protein) - Rat Genome Database

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Gene: Slx4ip (SLX4 interacting protein) Rattus norvegicus
Analyze
Symbol: Slx4ip
Name: SLX4 interacting protein
RGD ID: 1563120
Description: Orthologous to human SLX4IP (SLX4 interacting protein); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102549953; LOC499895; RGD1563120; similar to RIKEN cDNA 2210009G21; uncharacterized LOC102549953; uncharacterized protein LOC499895
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23124,220,215 - 124,396,797 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl3124,221,198 - 124,396,797 (+)Ensembl
Rnor_6.03129,884,871 - 130,069,371 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3129,885,826 - 130,069,390 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03136,489,186 - 136,545,079 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43125,104,880 - 125,167,452 (+)NCBIRGSC3.4rn4RGSC3.4
Celera3122,940,057 - 123,112,478 (+)NCBICelera
Cytogenetic Map3q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Slx4ip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23124,220,215 - 124,396,797 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl3124,221,198 - 124,396,797 (+)Ensembl
Rnor_6.03129,884,871 - 130,069,371 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3129,885,826 - 130,069,390 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03136,489,186 - 136,545,079 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43125,104,880 - 125,167,452 (+)NCBIRGSC3.4rn4RGSC3.4
Celera3122,940,057 - 123,112,478 (+)NCBICelera
Cytogenetic Map3q36NCBI
SLX4IP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382010,435,305 - 10,628,030 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2010,435,305 - 10,636,829 (+)EnsemblGRCh38hg38GRCh38
GRCh372010,415,953 - 10,608,678 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362010,363,951 - 10,552,027 (+)NCBINCBI36hg18NCBI36
Celera2010,485,945 - 10,674,022 (+)NCBI
Cytogenetic Map20p12.2NCBI
HuRef2010,367,720 - 10,555,487 (+)NCBIHuRef
CHM1_12010,416,507 - 10,604,563 (+)NCBICHM1_1
Slx4ip
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392136,733,138 - 136,923,273 (+)NCBIGRCm39mm39
GRCm39 Ensembl2136,733,138 - 136,913,870 (+)Ensembl
GRCm382136,891,213 - 137,081,351 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2136,891,218 - 137,071,950 (+)EnsemblGRCm38mm10GRCm38
MGSCv372136,716,954 - 136,895,514 (+)NCBIGRCm37mm9NCBIm37
MGSCv362136,582,659 - 136,761,219 (+)NCBImm8
Celera2138,082,793 - 138,261,593 (+)NCBICelera
Cytogenetic Map2F3NCBI
Slx4ip
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541520,394,192 - 20,481,249 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541520,316,664 - 20,478,786 (+)NCBIChiLan1.0ChiLan1.0
SLX4IP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12010,381,239 - 10,570,472 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2010,381,239 - 10,572,296 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02010,380,226 - 10,570,766 (+)NCBIMhudiblu_PPA_v0panPan3
SLX4IP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12411,702,955 - 11,886,664 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2411,706,776 - 11,772,030 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2411,522,004 - 11,706,509 (-)NCBI
ROS_Cfam_1.02412,113,673 - 12,298,402 (-)NCBI
ROS_Cfam_1.0 Ensembl2412,117,495 - 12,182,883 (-)Ensembl
UMICH_Zoey_3.12411,721,338 - 11,905,871 (-)NCBI
UNSW_CanFamBas_1.02411,820,563 - 12,005,032 (-)NCBI
UU_Cfam_GSD_1.02412,163,320 - 12,347,977 (-)NCBI
LOC101977154
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640160,472,589 - 160,657,608 (-)NCBI
SpeTri2.0NW_0049364858,907,153 - 9,088,595 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLX4IP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11719,363,727 - 19,578,132 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21721,836,880 - 22,048,255 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103246480
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1227,530,833 - 27,727,480 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl227,535,125 - 27,602,793 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607116,852,392 - 17,065,833 (+)NCBIVero_WHO_p1.0
Slx4ip
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474111,447,398 - 11,638,083 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D3Rat155  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23124,224,041 - 124,224,285 (+)MAPPERmRatBN7.2
Rnor_6.03129,888,699 - 129,888,942NCBIRnor6.0
Rnor_5.03136,369,704 - 136,369,947UniSTSRnor5.0
RGSC_v3.43124,997,255 - 124,997,499RGDRGSC3.4
RGSC_v3.43124,997,256 - 124,997,499UniSTSRGSC3.4
RGSC_v3.13124,902,828 - 124,903,072RGD
Celera3122,942,930 - 122,943,173UniSTS
SHRSP x BN Map361.9098RGD
SHRSP x BN Map361.9098UniSTS
Cytogenetic Map3q36UniSTS
D3Rat154  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23124,286,544 - 124,286,690 (+)MAPPERmRatBN7.2
Rnor_6.03129,958,906 - 129,959,051NCBIRnor6.0
Rnor_5.03136,438,243 - 136,438,388UniSTSRnor5.0
RGSC_v3.43125,060,606 - 125,060,752RGDRGSC3.4
RGSC_v3.43125,060,607 - 125,060,752UniSTSRGSC3.4
RGSC_v3.13124,966,179 - 124,966,325RGD
Celera3123,006,328 - 123,006,475UniSTS
SHRSP x BN Map361.9098RGD
SHRSP x BN Map361.9098UniSTS
Cytogenetic Map3q36UniSTS
AU047409  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23124,290,656 - 124,290,926 (+)MAPPERmRatBN7.2
mRatBN7.21842,910,533 - 42,911,501 (+)MAPPERmRatBN7.2
Rnor_6.01843,953,969 - 43,954,936NCBIRnor6.0
Rnor_6.03129,963,018 - 129,963,287NCBIRnor6.0
Rnor_5.01446,165,543 - 46,166,510UniSTSRnor5.0
Rnor_5.03136,442,355 - 136,442,624UniSTSRnor5.0
RGSC_v3.43125,064,719 - 125,064,988UniSTSRGSC3.4
RGSC_v3.41844,727,393 - 44,728,360UniSTSRGSC3.4
Celera1841,139,257 - 41,140,224UniSTS
Celera3123,010,442 - 123,010,711UniSTS
Cytogenetic Map3q36UniSTS
Cytogenetic Map14p11UniSTS
BE096454  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23124,326,183 - 124,326,351 (+)MAPPERmRatBN7.2
Rnor_6.03129,998,811 - 129,998,978NCBIRnor6.0
Rnor_5.03136,478,148 - 136,478,315UniSTSRnor5.0
RGSC_v3.43125,100,435 - 125,100,602UniSTSRGSC3.4
Celera3123,045,938 - 123,046,105UniSTS
RH 3.4 Map31087.8UniSTS
Cytogenetic Map3q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1331758Bp207Blood pressure QTL 2072.848arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3112287552135181505Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)3115638168135181505Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)3115638168135181505Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:56
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000009743, ENSRNOT00000070972
Prediction methods:Microtar, 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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 23 4
Low 3 36 57 41 19 41 3 4 51 35 37 11 3
Below cutoff 7 5 7 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009743   ⟹   ENSRNOP00000009743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3129,885,826 - 130,065,752 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000070972   ⟹   ENSRNOP00000065685
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3124,221,198 - 124,396,797 (+)Ensembl
Rnor_6.0 Ensembl3130,008,885 - 130,069,390 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109869   ⟹   ENSRNOP00000087503
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3124,364,405 - 124,396,797 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118214   ⟹   ENSRNOP00000086516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3124,221,198 - 124,396,797 (+)Ensembl
RefSeq Acc Id: NM_001271320   ⟹   NP_001258249
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,221,169 - 124,393,178 (+)NCBI
Rnor_6.03129,885,826 - 130,065,752 (+)NCBI
Rnor_5.03136,489,186 - 136,545,079 (+)NCBI
Celera3122,940,057 - 123,112,478 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762255   ⟹   XP_008760477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,220,221 - 124,396,797 (+)NCBI
Rnor_6.03129,884,931 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762256   ⟹   XP_008760478
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,221,136 - 124,396,797 (+)NCBI
Rnor_6.03129,885,841 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762257   ⟹   XP_008760479
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,221,136 - 124,396,797 (+)NCBI
Rnor_6.03129,885,841 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762258   ⟹   XP_008760480
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,220,215 - 124,396,797 (+)NCBI
Rnor_6.03129,884,871 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762259   ⟹   XP_008760481
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,337,293 - 124,396,797 (+)NCBI
Rnor_6.03130,028,538 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762260   ⟹   XP_008760482
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,337,293 - 124,396,797 (+)NCBI
Rnor_6.03130,029,685 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762261   ⟹   XP_008760483
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,221,136 - 124,396,797 (+)NCBI
Rnor_6.03129,885,841 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591988   ⟹   XP_017447477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,221,136 - 124,396,797 (+)NCBI
Rnor_6.03129,885,841 - 130,069,371 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039105700   ⟹   XP_038961628
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,359,909 - 124,396,797 (+)NCBI
RefSeq Acc Id: XM_039105701   ⟹   XP_038961629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23124,221,136 - 124,392,596 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001258249   ⟸   NM_001271320
- UniProtKB: F1M0V5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760480   ⟸   XM_008762258
- Peptide Label: isoform X1
- UniProtKB: F1M0V5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760477   ⟸   XM_008762255
- Peptide Label: isoform X1
- UniProtKB: F1M0V5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760478   ⟸   XM_008762256
- Peptide Label: isoform X1
- UniProtKB: F1M0V5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760483   ⟸   XM_008762261
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008760479   ⟸   XM_008762257
- Peptide Label: isoform X1
- UniProtKB: F1M0V5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760481   ⟸   XM_008762259
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008760482   ⟸   XM_008762260
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017447477   ⟸   XM_017591988
- Peptide Label: isoform X1
- UniProtKB: F1M0V5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065685   ⟸   ENSRNOT00000070972
RefSeq Acc Id: ENSRNOP00000009743   ⟸   ENSRNOT00000009743
RefSeq Acc Id: XP_038961629   ⟸   XM_039105701
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038961628   ⟸   XM_039105700
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000086516   ⟸   ENSRNOT00000118214
RefSeq Acc Id: ENSRNOP00000087503   ⟸   ENSRNOT00000109869

Protein Structures
Name Modeller Protein Id AA Range Protein Structure Video
AF-M0R893-F1-model_v2 AlphaFold M0R893 1-426 view protein structure  

Transcriptome

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

Promoters
RGD ID:13692466
Promoter ID:EPDNEW_R2990
Type:initiation region
Name:Slx4ip_1
Description:SLX4 interacting protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03129,885,883 - 129,885,943EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 130065636 130065637 C T snv LEXF10A/StmMcwi (2020), F344/NRrrc (MCW), F344/NCrl (RGD), F344/DuCrl (2019), F344/NCrl (2019), LEXF4/Stm (2020), F344/Stm (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), LEXF2B/Stm (2019), F344/N (2020)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 124393062 124393063 C T snv F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), LEXF10A/StmMcwi (2020), FXLE18/Stm (2020), LEXF2B/Stm (2019), LEXF4/Stm (2020), FXLE16/Stm (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563120 AgrOrtholog
BioCyc Gene G2FUF-47712 BioCyc
Ensembl Genes ENSRNOG00000007430 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009743 UniProtKB/TrEMBL
  ENSRNOP00000065685 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000087503 ENTREZGENE
Ensembl Transcript ENSRNOT00000009743 UniProtKB/TrEMBL
  ENSRNOT00000070972 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000109869 ENTREZGENE
InterPro SLX4IP UniProtKB/TrEMBL
KEGG Report rno:499895 UniProtKB/TrEMBL
NCBI Gene 499895 ENTREZGENE
PANTHER PTHR28557 UniProtKB/TrEMBL
Pfam UPF0492 UniProtKB/TrEMBL
PhenoGen Slx4ip PhenoGen
UniProt F1M0V5 ENTREZGENE, UniProtKB/TrEMBL
  M0R893_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-29 Slx4ip  SLX4 interacting protein  LOC102549953  uncharacterized LOC102549953  Data Merged 737654 PROVISIONAL
2013-12-17 LOC102549953  uncharacterized LOC102549953      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-11-07 Slx4ip  SLX4 interacting protein  RGD1563120  similar to RIKEN cDNA 2210009G21  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1563120  similar to RIKEN cDNA 2210009G21   RGD1563120_predicted  similar to RIKEN cDNA 2210009G21 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1563120_predicted  similar to RIKEN cDNA 2210009G21 (predicted)  LOC499895  similar to RIKEN cDNA 2210009G21  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499895  similar to RIKEN cDNA 2210009G21      Symbol and Name status set to provisional 70820 PROVISIONAL