Slf2 (SMC5-SMC6 complex localization factor 2) - Rat Genome Database

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Gene: Slf2 (SMC5-SMC6 complex localization factor 2) Ictidomys tridecemlineatus
Analyze
Symbol: Slf2
Name: SMC5-SMC6 complex localization factor 2
RGD ID: 12596806
Description: ENCODES a protein that exhibits protein-containing complex binding (inferred); ubiquitin protein ligase binding (inferred); INVOLVED IN DNA damage response (inferred); positive regulation of double-strand break repair (inferred); positive regulation of maintenance of mitotic sister chromatid cohesion (inferred); ASSOCIATED WITH genetic disease (ortholog); Mosaic Variegated Aneuploidy Syndrome 5 (ortholog); FOUND IN chromatin (inferred); intracellular membrane-bounded organelle (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Fam178a; family with sequence similarity 178, member A; SMC5-SMC6 complex localization factor 2, transcript variant X1; SMC5-SMC6 complex localization factor 2, transcript variant X3; SMC5-SMC6 complex localization factor 2, transcript variant X4; SMC5-SMC6 complex localization factor 2, transcript variant X5; SMC5-SMC6 complex localization factor protein 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721333,112,896 - 33,162,908 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366004,721,327 - 4,765,915 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366004,715,504 - 4,766,273 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Slf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721333,112,896 - 33,162,908 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366004,721,327 - 4,765,915 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366004,715,504 - 4,766,273 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810100,912,963 - 100,965,134 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10100,912,963 - 100,965,134 (+)EnsemblGRCh38hg38GRCh38
GRCh3710102,672,720 - 102,724,891 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3610102,662,316 - 102,714,881 (+)NCBINCBI36Build 36hg18NCBI36
Build 3410102,662,315 - 102,714,879NCBI
Celera1096,410,079 - 96,462,617 (+)NCBICelera
Cytogenetic Map10q24.31NCBI
HuRef1096,300,921 - 96,353,909 (+)NCBIHuRef
CHM1_110102,956,597 - 103,009,083 (+)NCBICHM1_1
T2T-CHM13v2.010101,792,183 - 101,848,510 (+)NCBIT2T-CHM13v2.0
Slf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391944,906,948 - 44,972,225 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1944,919,558 - 44,972,225 (+)EnsemblGRCm39 Ensembl
GRCm381944,918,506 - 44,983,786 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1944,931,151 - 44,983,299 (+)EnsemblGRCm38mm10GRCm38
MGSCv371945,005,609 - 45,058,277 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361944,984,430 - 45,037,098 (+)NCBIMGSCv36mm8
Celera1945,701,790 - 45,754,432 (+)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1938.16NCBI
Slf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81253,731,979 - 253,794,577 (+)NCBIGRCr8
mRatBN7.21243,782,786 - 243,845,418 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1243,782,246 - 243,845,250 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1251,930,618 - 251,993,084 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01258,628,502 - 258,690,963 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01251,280,577 - 251,343,117 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01264,670,836 - 264,733,465 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1264,670,841 - 264,733,306 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01272,112,614 - 272,175,856 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41249,986,434 - 250,048,899 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1239,594,279 - 239,656,726 (+)NCBICelera
Cytogenetic Map1q54NCBI
Slf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554859,221,419 - 9,269,308 (-)NCBIChiLan1.0ChiLan1.0
SLF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28112,795,860 - 112,850,160 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110112,798,071 - 112,855,480 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01097,511,398 - 97,566,386 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110100,988,993 - 101,042,730 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10100,989,044 - 101,042,730 (+)Ensemblpanpan1.1panPan2
SLF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12813,595,194 - 13,656,644 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2813,595,831 - 13,651,638 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2813,774,925 - 13,826,145 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02814,073,514 - 14,124,742 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2814,063,037 - 14,123,158 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12813,619,475 - 13,670,490 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02813,660,754 - 13,711,779 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02813,792,519 - 13,843,753 (+)NCBIUU_Cfam_GSD_1.0
SLF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14111,996,783 - 112,047,885 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114111,996,781 - 112,049,309 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SLF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1993,919,373 - 93,983,499 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl993,931,456 - 93,980,297 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604854,982,585 - 55,035,109 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624831522,674 - 570,124 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624831522,190 - 573,431 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000028681   ⟹   ENSSTOP00000021633
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049366004,721,327 - 4,765,915 (-)Ensembl
RefSeq Acc Id: XM_005333673   ⟹   XP_005333730
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,114,790 - 33,162,895 (-)NCBI
SpeTri2.0NW_0049366004,718,015 - 4,766,273 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005333674   ⟹   XP_005333731
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,114,790 - 33,162,895 (-)NCBI
SpeTri2.0NW_0049366004,718,015 - 4,766,273 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021731900   ⟹   XP_021587575
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,114,790 - 33,153,217 (-)NCBI
SpeTri2.0NW_0049366004,718,015 - 4,756,369 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040272758   ⟹   XP_040128692
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,114,790 - 33,162,491 (-)NCBI
RefSeq Acc Id: XM_040272759   ⟹   XP_040128693
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,127,921 - 33,162,885 (-)NCBI
RefSeq Acc Id: XM_040272760   ⟹   XP_040128694
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,144,866 - 33,162,902 (-)NCBI
RefSeq Acc Id: XR_001230006
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,112,896 - 33,162,895 (-)NCBI
SpeTri2.0NW_0049366004,715,504 - 4,766,273 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005728057
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721333,139,728 - 33,162,908 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005333730   ⟸   XM_005333673
- Peptide Label: isoform X1
- UniProtKB: I3NB86 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005333731   ⟸   XM_005333674
- Peptide Label: isoform X2
- UniProtKB: I3NB86 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021587575   ⟸   XM_021731900
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_040128692   ⟸   XM_040272758
- Peptide Label: isoform X3
- UniProtKB: I3NB86 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040128693   ⟸   XM_040272759
- Peptide Label: isoform X4
- UniProtKB: I3NB86 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040128694   ⟸   XM_040272760
- Peptide Label: isoform X5
RefSeq Acc Id: ENSSTOP00000021633   ⟸   ENSSTOT00000028681
Protein Domains
Coiled-coil SMC6 And NSE5 INteracting (CANIN)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000008951 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000028681.2 UniProtKB/TrEMBL
InterPro CANIN_dom UniProtKB/TrEMBL
  FAM178 UniProtKB/TrEMBL
NCBI Gene Slf2 ENTREZGENE
PANTHER PTHR16046 UniProtKB/TrEMBL
  SMC5-SMC6 COMPLEX LOCALIZATION FACTOR PROTEIN 2 UniProtKB/TrEMBL
Pfam FAM178 UniProtKB/TrEMBL
UniProt I3NB86 ENTREZGENE, UniProtKB/TrEMBL