Synm (synemin) - Rat Genome Database

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Gene: Synm (synemin) Heterocephalus glaber
Analyze
Symbol: Synm
Name: synemin
RGD ID: 18914703
Description: ENCODES a protein that exhibits intermediate filament binding (ortholog); structural constituent of cytoskeleton (ortholog); structural constituent of muscle (ortholog); INVOLVED IN fast-twitch skeletal muscle fiber contraction (ortholog); ASSOCIATED WITH chromosome 15q26-qter deletion syndrome (ortholog); FOUND IN costamere (ortholog); intermediate filament (ortholog); intermediate filament cytoskeleton (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247685,195,707 - 5,219,047 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247685,193,075 - 5,219,015 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
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
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Synm
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247685,195,707 - 5,219,047 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247685,193,075 - 5,219,015 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
SYNM
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381599,105,080 - 99,141,767 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1599,098,217 - 99,135,593 (+)EnsemblGRCh38hg38GRCh38
GRCh371599,645,286 - 99,675,798 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361597,462,809 - 97,493,323 (+)NCBINCBI36Build 36hg18NCBI36
Build 341597,462,808 - 97,493,311NCBI
Celera1576,064,213 - 76,094,750 (+)NCBICelera
Cytogenetic Map15q26.3NCBI
HuRef1575,774,873 - 75,805,361 (+)NCBIHuRef
CHM1_11599,486,672 - 99,517,169 (+)NCBICHM1_1
T2T-CHM13v2.01596,869,529 - 96,908,995 (+)NCBIT2T-CHM13v2.0
Synm
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39767,379,909 - 67,409,490 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl767,379,908 - 67,409,490 (-)EnsemblGRCm39 Ensembl
GRCm38767,730,161 - 67,759,742 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl767,730,160 - 67,759,742 (-)EnsemblGRCm38mm10GRCm38
MGSCv37774,875,047 - 74,904,628 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36767,603,681 - 67,633,206 (-)NCBIMGSCv36mm8
Celera765,184,111 - 65,213,801 (-)NCBICelera
Cytogenetic Map7CNCBI
cM Map737.12NCBI
Synm
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81130,743,891 - 130,774,254 (-)NCBIGRCr8
mRatBN7.21121,333,712 - 121,363,652 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1121,333,720 - 121,363,652 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1129,331,682 - 129,361,456 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01136,501,760 - 136,531,534 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01129,302,717 - 129,332,493 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01128,692,112 - 128,722,048 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1128,692,112 - 128,722,048 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01129,757,882 - 129,788,008 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41122,474,205 - 122,504,176 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11122,552,553 - 122,582,427 (-)NCBI
Celera1113,533,990 - 113,563,954 (-)NCBICelera
Cytogenetic Map1q22NCBI
Synm
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541626,554,703 - 26,578,761 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541626,554,074 - 26,579,804 (+)NCBIChiLan1.0ChiLan1.0
SYNM
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21688,652,427 - 88,683,309 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11592,349,350 - 92,380,230 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01577,790,447 - 77,821,317 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11596,974,351 - 97,004,956 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1596,975,160 - 97,002,412 (+)Ensemblpanpan1.1panPan2
SYNM
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1341,595,218 - 41,623,475 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl341,594,580 - 41,623,627 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha344,293,967 - 44,322,213 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0342,002,473 - 42,030,729 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1341,527,975 - 41,556,222 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0341,758,828 - 41,787,080 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0341,979,463 - 42,007,725 (-)NCBIUU_Cfam_GSD_1.0
Synm
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640141,945,901 - 141,971,595 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364834,365,508 - 4,389,180 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364834,362,891 - 4,388,558 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNM
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11137,855,644 - 137,883,914 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21154,019,589 - 154,047,542 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SYNM
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12917,693,148 - 17,723,847 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2917,693,121 - 17,724,387 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605928,842,961 - 28,873,687 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000021367   ⟹   ENSHGLP00000021164
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247685,195,707 - 5,219,047 (-)Ensembl
RefSeq Acc Id: XM_004852702   ⟹   XP_004852759
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247685,193,075 - 5,219,014 (-)NCBI
RefSeq Acc Id: XM_004852703   ⟹   XP_004852760
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247685,193,075 - 5,219,010 (-)NCBI
RefSeq Acc Id: XM_021264758   ⟹   XP_021120417
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247685,193,075 - 5,219,015 (-)NCBI
RefSeq Acc Id: XM_021264759   ⟹   XP_021120418
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247685,193,075 - 5,219,011 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004852759 (Get FASTA)   NCBI Sequence Viewer  
  XP_004852760 (Get FASTA)   NCBI Sequence Viewer  
  XP_021120417 (Get FASTA)   NCBI Sequence Viewer  
  XP_021120418 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000021164
Reference Protein Sequences
RefSeq Acc Id: XP_021120417   ⟸   XM_021264758
- Peptide Label: isoform X1
RefSeq Acc Id: XP_004852759   ⟸   XM_004852702
- Peptide Label: isoform X2
RefSeq Acc Id: XP_021120418   ⟸   XM_021264759
- Peptide Label: isoform X3
RefSeq Acc Id: XP_004852760   ⟸   XM_004852703
- Peptide Label: isoform X4
RefSeq Acc Id: ENSHGLP00000021164   ⟸   ENSHGLT00000021367


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000015122 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000021367 ENTREZGENE
NCBI Gene Synm ENTREZGENE