Syne4 (spectrin repeat containing nuclear envelope family member 4) - Rat Genome Database

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Gene: Syne4 (spectrin repeat containing nuclear envelope family member 4) Chinchilla lanigera
Analyze
Symbol: Syne4
Name: spectrin repeat containing nuclear envelope family member 4
RGD ID: 8846457
Description: INVOLVED IN establishment of epithelial cell apical/basal polarity (ortholog); ASSOCIATED WITH autosomal recessive nonsyndromic deafness 76 (ortholog); Brugada syndrome 5 (ortholog); hereditary spastic paraplegia 75 (ortholog); FOUND IN nuclear outer membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: nesprin-4; spectrin repeat containing, nuclear envelope family member 4
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554682,580,743 - 2,584,967 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBIChiLan1.0ChiLan1.0
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Syne4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554682,580,743 - 2,584,967 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBIChiLan1.0ChiLan1.0
SYNE4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381936,003,307 - 36,008,813 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1936,003,307 - 36,008,813 (-)EnsemblGRCh38hg38GRCh38
GRCh371936,494,209 - 36,499,715 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361941,185,842 - 41,191,512 (-)NCBINCBI36Build 36hg18NCBI36
Celera1933,208,182 - 33,213,852 (-)NCBICelera
Cytogenetic Map19q13.12NCBI
HuRef1932,999,551 - 33,005,221 (-)NCBIHuRef
CHM1_11936,495,363 - 36,501,021 (-)NCBICHM1_1
T2T-CHM13v2.01938,549,106 - 38,554,612 (-)NCBIT2T-CHM13v2.0
Syne4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39730,014,268 - 30,018,471 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl730,014,232 - 30,018,471 (+)EnsemblGRCm39 Ensembl
GRCm38730,314,816 - 30,319,045 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl730,314,807 - 30,319,046 (+)EnsemblGRCm38mm10GRCm38
MGSCv37731,099,835 - 31,104,064 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36730,023,589 - 30,027,802 (+)NCBIMGSCv36mm8
Celera724,910,949 - 24,915,178 (+)NCBICelera
Cytogenetic Map7B1NCBI
cM Map717.39NCBI
Syne4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8194,696,866 - 94,701,230 (+)NCBIGRCr8
mRatBN7.2185,569,409 - 85,573,775 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl185,569,545 - 85,573,760 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx190,985,692 - 90,989,914 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0199,453,869 - 99,458,094 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0192,743,953 - 92,748,175 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0188,772,729 - 88,777,044 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl190,951,771 - 90,957,082 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl188,772,904 - 88,776,999 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0192,089,513 - 92,094,265 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4185,261,148 - 85,265,361 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera179,943,400 - 79,947,613 (+)NCBICelera
Cytogenetic Map1q21NCBI
SYNE4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22042,004,219 - 42,009,995 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11943,980,063 - 43,993,549 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01932,921,175 - 32,927,266 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11941,671,236 - 41,675,697 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1941,671,236 - 41,675,697 (-)Ensemblpanpan1.1panPan2
SYNE4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11116,676,365 - 116,686,911 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1116,670,841 - 116,680,515 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1116,082,051 - 116,086,286 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01117,279,504 - 117,283,709 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1117,279,808 - 117,283,665 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11116,843,545 - 116,847,745 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01116,467,111 - 116,471,289 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01117,522,317 - 117,526,499 (+)NCBIUU_Cfam_GSD_1.0
Syne4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934911,270,511 - 11,274,218 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493692240,684 - 44,312 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493692240,640 - 44,414 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNE4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl645,380,218 - 45,384,671 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1645,377,914 - 45,384,869 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2640,782,889 - 40,787,555 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYNE4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1630,914,081 - 30,920,154 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl630,914,119 - 30,919,752 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660738,709,024 - 8,715,061 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000024243   ⟹   ENSCLAP00000024013
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554682,580,743 - 2,584,967 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000024244   ⟹   ENSCLAP00000024014
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554682,581,206 - 2,584,926 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000024245   ⟹   ENSCLAP00000024015
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554682,581,206 - 2,582,982 (+)Ensembl
RefSeq Acc Id: XM_005399934   ⟹   XP_005399991
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005399935   ⟹   XP_005399992
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005399936   ⟹   XP_005399993
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005399937   ⟹   XP_005399994
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005399938   ⟹   XP_005399995
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554682,580,743 - 2,584,967 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005399991   ⟸   XM_005399934
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005399995   ⟸   XM_005399938
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_005399992   ⟸   XM_005399935
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005399994   ⟸   XM_005399937
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_005399993   ⟸   XM_005399936
- Peptide Label: isoform X3
- UniProtKB: A0A8C2W946 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000024014   ⟸   ENSCLAT00000024244
RefSeq Acc Id: ENSCLAP00000024015   ⟸   ENSCLAT00000024245
RefSeq Acc Id: ENSCLAP00000024013   ⟸   ENSCLAT00000024243
Protein Domains
KASH


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000016485 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000024243 ENTREZGENE
  ENSCLAT00000024243.1 UniProtKB/TrEMBL
  ENSCLAT00000024244.1 UniProtKB/TrEMBL
  ENSCLAT00000024245.1 UniProtKB/TrEMBL
InterPro KASH UniProtKB/TrEMBL
  SYNE4 UniProtKB/TrEMBL
NCBI Gene Syne4 ENTREZGENE
PANTHER NESPRIN-4 UniProtKB/TrEMBL
  PTHR21640 UniProtKB/TrEMBL
Pfam KASH UniProtKB/TrEMBL
PROSITE KASH UniProtKB/TrEMBL
SMART KASH UniProtKB/TrEMBL
Superfamily-SCOP Spectrin repeat UniProtKB/TrEMBL
UniProt A0A8C2W4U5_CHILA UniProtKB/TrEMBL
  A0A8C2W6T7_CHILA UniProtKB/TrEMBL
  A0A8C2W946 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Syne4  spectrin repeat containing nuclear envelope family member 4    spectrin repeat containing, nuclear envelope family member 4  Symbol and/or name change 5135510 APPROVED