Slf1 (SMC5/6 complex localization factor 1) - Rat Genome Database

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Gene: Slf1 (SMC5/6 complex localization factor 1) Rattus norvegicus
Analyze
Symbol: Slf1
Name: SMC5/6 complex localization factor 1 (Ensembl:SMC5-SMC6 complex localization factor 1)
RGD ID: 1304857
Description: Orthologous to human SLF1 (SMC5-SMC6 complex localization factor 1); INTERACTS WITH bisphenol A; cadmium dichloride; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Ankrd32; ankyrin repeat domain 32; ankyrin repeat domain-containing protein 32; LOC294601; SMC5-SMC6 complex localization factor 1; SMC5-SMC6 complex localization factor protein 1
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
GRCr828,498,776 - 8,606,251 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl28,498,778 - 8,605,760 (-)EnsemblGRCr8
mRatBN7.226,767,015 - 6,874,428 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl26,767,015 - 6,867,149 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx213,879,067 - 13,986,283 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0211,978,347 - 12,085,564 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.026,613,410 - 6,719,621 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.024,095,126 - 4,195,819 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl24,095,129 - 4,195,810 (-)Ensemblrn6Rnor6.0
Rnor_5.024,092,109 - 4,193,740 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.424,361,776 - 4,469,805 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera23,225,433 - 3,326,221 (-)NCBICelera
RGSC_v3.124,436,397 - 4,492,122 (-)NCBI
Cytogenetic Map2q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15632077   PMID:21873635   PMID:22036607   PMID:25931565  


Genomics

Comparative Map Data
Slf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr828,498,776 - 8,606,251 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl28,498,778 - 8,605,760 (-)EnsemblGRCr8
mRatBN7.226,767,015 - 6,874,428 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl26,767,015 - 6,867,149 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx213,879,067 - 13,986,283 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0211,978,347 - 12,085,564 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.026,613,410 - 6,719,621 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.024,095,126 - 4,195,819 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl24,095,129 - 4,195,810 (-)Ensemblrn6Rnor6.0
Rnor_5.024,092,109 - 4,193,740 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.424,361,776 - 4,469,805 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera23,225,433 - 3,326,221 (-)NCBICelera
RGSC_v3.124,436,397 - 4,492,122 (-)NCBI
Cytogenetic Map2q11NCBI
SLF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38594,618,231 - 94,697,621 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl594,618,054 - 94,739,436 (+)Ensemblhg38GRCh38
GRCh37593,954,374 - 94,033,326 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36594,040,330 - 94,057,338 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34594,040,329 - 94,057,110NCBI
Celera589,816,284 - 89,893,469 (+)NCBICelera
Cytogenetic Map5q15NCBI
HuRef589,127,664 - 89,204,854 (+)NCBIHuRef
CHM1_1593,387,020 - 93,464,202 (+)NCBICHM1_1
T2T-CHM13v2.0595,098,399 - 95,182,005 (+)NCBIT2T-CHM13v2.0
Slf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391377,191,207 - 77,283,632 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1377,191,207 - 77,283,592 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381377,043,088 - 77,135,513 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1377,043,088 - 77,135,473 (-)Ensemblmm10GRCm38
MGSCv371377,182,349 - 77,274,729 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361377,506,638 - 77,554,806 (-)NCBIMGSCv36mm8
Celera1379,368,270 - 79,463,257 (-)NCBICelera
Cytogenetic Map13C1NCBI
cM Map1340.98NCBI
Slf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541817,756,861 - 17,810,663 (-)Ensembl
ChiLan1.0NW_00495541817,756,610 - 17,818,552 (-)NCBIChiLan1.0ChiLan1.0
SLF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2420,684,529 - 20,782,033 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1518,838,281 - 18,935,816 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0520,660,101 - 20,757,072 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1520,817,614 - 20,894,427 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl520,817,614 - 20,884,453 (-)EnsemblpanPan2panpan1.1
SLF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1314,792,851 - 14,877,024 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl314,793,363 - 14,869,755 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha316,131,131 - 16,215,470 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0314,672,489 - 14,756,866 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl314,670,381 - 14,744,679 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1314,635,334 - 14,719,686 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0314,633,850 - 14,718,174 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0314,837,537 - 14,921,894 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Slf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213170,378,075 - 170,449,166 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365238,563,410 - 8,634,585 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365238,563,662 - 8,634,576 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2101,313,091 - 101,375,607 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.12101,286,744 - 101,375,612 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22104,867,972 - 104,919,338 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1488,497,787 - 88,573,966 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl488,499,373 - 88,576,983 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604937,141,458 - 37,236,741 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474313,337,785 - 13,395,618 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474313,327,544 - 13,394,434 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Slf1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v13219,750,995 - 219,838,565 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Slf1
340 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:259
Count of miRNA genes:166
Interacting mature miRNAs:188
Transcripts:ENSRNOT00000018457
Prediction methods:Microtar, Miranda, 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
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)2573632550736325Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2142977529Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2615276751152767Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24265106205135428Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)27605533104774005Rat


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
16 12 67 165 91 90 59 91 59 6 354 191 11 144 80 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000018457   ⟹   ENSRNOP00000018457
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl28,498,778 - 8,598,187 (-)Ensembl
mRatBN7.2 Ensembl26,767,015 - 6,867,149 (-)Ensembl
Rnor_6.0 Ensembl24,095,129 - 4,195,810 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000125299   ⟹   ENSRNOP00000110893
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl28,498,778 - 8,605,760 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000126534   ⟹   ENSRNOP00000108844
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl28,498,778 - 8,600,023 (-)Ensembl
RefSeq Acc Id: NM_001106400   ⟹   NP_001099870
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr828,498,778 - 8,606,223 (-)NCBI
mRatBN7.226,767,015 - 6,874,428 (-)NCBI
Rnor_6.024,095,131 - 4,195,819 (-)NCBI
Rnor_5.024,092,109 - 4,193,740 (-)NCBI
RGSC_v3.424,361,776 - 4,469,805 (-)RGD
Celera23,225,433 - 3,326,221 (-)RGD
Sequence:
RefSeq Acc Id: XM_063281458   ⟹   XP_063137528
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr828,498,776 - 8,596,860 (-)NCBI
RefSeq Acc Id: XM_063281459   ⟹   XP_063137529
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr828,514,337 - 8,606,251 (-)NCBI
RefSeq Acc Id: XR_010063587
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr828,520,227 - 8,606,251 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001099870 (Get FASTA)   NCBI Sequence Viewer  
  XP_063137528 (Get FASTA)   NCBI Sequence Viewer  
  XP_063137529 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM09927 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000103791.1
  ENSRNOP00000108844.1
  ENSRNOP00000110893
  ENSRNOP00000110893.1
RefSeq Acc Id: NP_001099870   ⟸   NM_001106400
- UniProtKB: A6I4G9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018457   ⟸   ENSRNOT00000018457
RefSeq Acc Id: XP_063137528   ⟸   XM_063281458
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063137529   ⟸   XM_063281459
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000110893   ⟸   ENSRNOT00000125299
Ensembl Acc Id: ENSRNOP00000108844   ⟸   ENSRNOT00000126534
Protein Domains
BRCT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZVR6-F1-model_v2 AlphaFold D3ZVR6 1-1059 view protein structure

Transcriptome

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

Promoters
RGD ID:13691039
Promoter ID:EPDNEW_R1564
Type:multiple initiation site
Name:Slf1_1
Description:SMC5-SMC6 complex localization factor 1
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_6.024,195,812 - 4,195,872EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304857 AgrOrtholog
BioCyc Gene G2FUF-55071 BioCyc
Ensembl Genes ENSRNOG00000040279 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018457.7 UniProtKB/TrEMBL
  ENSRNOT00000125299 ENTREZGENE
  ENSRNOT00000125299.1 UniProtKB/TrEMBL
  ENSRNOT00000126534.1 UniProtKB/TrEMBL
Gene3D-CATH Ankyrin repeat-containing domain UniProtKB/TrEMBL
  BRCT domain UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/TrEMBL
  BRCT_dom UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  BRCT_SLF1 UniProtKB/TrEMBL
  Slf1 UniProtKB/TrEMBL
  TopB1_SLF1_BRCT UniProtKB/TrEMBL
KEGG Report rno:294601 UniProtKB/TrEMBL
NCBI Gene 294601 ENTREZGENE
PANTHER SMC5-SMC6 COMPLEX LOCALIZATION FACTOR PROTEIN 1 UniProtKB/TrEMBL
  SMC5-SMC6 COMPLEX LOCALIZATION FACTOR PROTEIN 1 UniProtKB/TrEMBL
Pfam Ank_2 UniProtKB/TrEMBL
  BRCT_TopB1_SLF1 UniProtKB/TrEMBL
  RTT107_BRCT_5 UniProtKB/TrEMBL
PhenoGen Slf1 PhenoGen
PROSITE ANK_REP_REGION UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/TrEMBL
RatGTEx ENSRNOG00000040279 RatGTEx
SMART ANK UniProtKB/TrEMBL
  BRCT UniProtKB/TrEMBL
Superfamily-SCOP Ankyrin repeat UniProtKB/TrEMBL
  BRCT domain UniProtKB/TrEMBL
UniProt A0ABK0LDP5_RAT UniProtKB/TrEMBL
  A0ABK0LHG4_RAT UniProtKB/TrEMBL
  A0ABK0M5Y1_RAT UniProtKB/TrEMBL
  A6I4G9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2025-11-13 Slf1  SMC5/6 complex localization factor 1  Slf1  SMC5-SMC6 complex localization factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-15 Slf1  SMC5-SMC6 complex localization factor 1  Ankrd32  ankyrin repeat domain 32  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ankrd32  ankyrin repeat domain 32   Ankrd32_predicted  ankyrin repeat domain 32 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ankrd32_predicted  ankyrin repeat domain 32 (predicted)      Symbol and Name status set to approved 70820 APPROVED