Tamalin (trafficking regulator and scaffold protein tamalin) - Rat Genome Database

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Gene: Tamalin (trafficking regulator and scaffold protein tamalin) Rattus norvegicus
Analyze
Symbol: Tamalin
Name: trafficking regulator and scaffold protein tamalin
RGD ID: 70554
Description: Enables PDZ domain binding activity; identical protein binding activity; and small GTPase binding activity. Predicted to be involved in regulation of neurotransmitter receptor transport, endosome to postsynaptic membrane and signal transduction. Is active in glutamatergic synapse and postsynaptic density. Orthologous to human TAMALIN (trafficking regulator and scaffold protein tamalin); INTERACTS WITH 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 95 kDa postsynaptic density protein discs-large ZO-1 domain-containing protein; general receptor for phosphoinositides 1 associated scaffold protein; general receptor for phosphoinositides 1-associated scaffold protein; Grasp; GRP1 (general receptor for phosphoinositides 1)-associated scaffold protein; Grp1 (general receptor for phosphoinositides)-associated scaffold protein; GRP1-associated scaffold protein; LOC102556412; PSD-95 PDZ domain-containing protein; uncharacterized LOC102556412
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
GRCr87134,217,612 - 134,225,378 (+)NCBIGRCr8
mRatBN7.27132,338,900 - 132,359,519 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7132,338,900 - 132,346,666 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7134,140,744 - 134,148,514 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07136,370,258 - 136,378,028 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07136,280,692 - 136,288,521 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07142,869,785 - 142,877,551 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7142,869,752 - 142,878,347 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07140,670,666 - 140,678,432 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47139,970,173 - 139,977,939 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17140,046,609 - 140,054,376 (+)NCBI
Celera7128,804,534 - 128,812,273 (+)NCBICelera
Cytogenetic Map7q36NCBI
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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Tamalin is a scaffold protein that interacts with multiple neuronal proteins in distinct modes of protein-protein association. Kitano J, etal., J Biol Chem 2003 Apr 25;278(17):14762-8. Epub 2003 Feb 13.
3. Tamalin, a PDZ domain-containing protein, links a protein complex formation of group 1 metabotropic glutamate receptors and the guanine nucleotide exchange factor cytohesins. Kitano J, etal., J Neurosci 2002 Feb 15;22(4):1280-9.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Crystal structures of autoinhibitory PDZ domain of Tamalin: implications for metabotropic glutamate receptor trafficking regulation. Sugi T, etal., EMBO J. 2007 Apr 18;26(8):2192-205. Epub 2007 Mar 29.
Additional References at PubMed
PMID:10828067   PMID:15173175   PMID:22569042   PMID:22980744   PMID:28285821  


Genomics

Comparative Map Data
Tamalin
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87134,217,612 - 134,225,378 (+)NCBIGRCr8
mRatBN7.27132,338,900 - 132,359,519 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7132,338,900 - 132,346,666 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7134,140,744 - 134,148,514 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07136,370,258 - 136,378,028 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07136,280,692 - 136,288,521 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07142,869,785 - 142,877,551 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7142,869,752 - 142,878,347 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07140,670,666 - 140,678,432 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47139,970,173 - 139,977,939 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17140,046,609 - 140,054,376 (+)NCBI
Celera7128,804,534 - 128,812,273 (+)NCBICelera
Cytogenetic Map7q36NCBI
TAMALIN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381252,006,946 - 52,015,889 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1252,006,946 - 52,015,889 (+)EnsemblGRCh38hg38GRCh38
GRCh371252,400,730 - 52,409,673 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361250,687,015 - 50,695,938 (+)NCBINCBI36Build 36hg18NCBI36
Build 341250,687,014 - 50,695,938NCBI
Celera1251,203,041 - 51,211,963 (+)NCBICelera
Cytogenetic Map12q13.13NCBI
HuRef1249,433,882 - 49,442,831 (+)NCBIHuRef
CHM1_11252,367,010 - 52,375,941 (+)NCBICHM1_1
T2T-CHM13v2.01251,970,517 - 51,979,459 (+)NCBIT2T-CHM13v2.0
Tamalin
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915101,122,088 - 101,130,637 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl15101,122,069 - 101,130,637 (+)EnsemblGRCm39 Ensembl
GRCm3815101,224,207 - 101,232,756 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15101,224,188 - 101,232,756 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715101,054,638 - 101,063,187 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3615101,052,243 - 101,066,427 (+)NCBIMGSCv36mm8
Celera15103,372,533 - 103,381,084 (+)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1556.57NCBI
Tamalin
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555472,377,702 - 2,385,277 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555472,377,612 - 2,385,918 (+)NCBIChiLan1.0ChiLan1.0
TAMALIN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21042,179,596 - 42,188,252 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11242,176,359 - 42,185,012 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01236,747,159 - 36,755,812 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11237,523,542 - 37,531,996 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1237,524,232 - 37,531,927 (-)Ensemblpanpan1.1panPan2
TAMALIN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1272,981,261 - 3,000,648 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2743,255,149 - 43,262,297 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0272,991,005 - 2,998,190 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl272,990,639 - 2,998,946 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1273,007,624 - 3,014,858 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0272,994,165 - 3,001,323 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02743,653,334 - 43,660,493 (+)NCBIUU_Cfam_GSD_1.0
Tamalin
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494563,697,480 - 63,706,368 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365129,458,444 - 9,467,351 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365129,458,549 - 9,467,350 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAMALIN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl517,355,883 - 17,366,309 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1517,357,625 - 17,366,033 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2517,942,982 - 17,953,496 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TAMALIN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11148,176,394 - 48,184,985 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1148,176,413 - 48,184,981 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037197,905,422 - 197,914,003 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tamalin
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624816312,476 - 323,192 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624816314,841 - 322,696 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tamalin
66 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:49
Count of miRNA genes:47
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000009979
Prediction methods:Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat


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 10 3 10 18 25 11
Low 3 33 57 41 16 41 8 11 64 17 16 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009979   ⟹   ENSRNOP00000009979
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7132,338,900 - 132,346,666 (+)Ensembl
Rnor_6.0 Ensembl7142,869,752 - 142,878,012 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088730   ⟹   ENSRNOP00000069285
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7142,877,086 - 142,878,347 (+)Ensembl
RefSeq Acc Id: NM_138894   ⟹   NP_620249
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87134,217,612 - 134,225,378 (+)NCBI
mRatBN7.27132,338,900 - 132,346,666 (+)NCBI
Rnor_6.07142,869,785 - 142,877,551 (+)NCBI
Rnor_5.07140,670,666 - 140,678,432 (+)NCBI
RGSC_v3.47139,970,173 - 139,977,939 (+)RGD
Celera7128,804,534 - 128,812,273 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_620249 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAL87038 (Get FASTA)   NCBI Sequence Viewer  
  EDL86904 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000009979
  ENSRNOP00000009979.1
  ENSRNOP00065032016
GenBank Protein Q8R4T5 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_620249   ⟸   NM_138894
- UniProtKB: Q8R4T5 (UniProtKB/Swiss-Prot),   A6KCN8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000009979   ⟸   ENSRNOT00000009979
RefSeq Acc Id: ENSRNOP00000069285   ⟸   ENSRNOT00000088730
Protein Domains
PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8R4T5-F1-model_v2 AlphaFold Q8R4T5 1-394 view protein structure

Transcriptome

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

Promoters
RGD ID:13695666
Promoter ID:EPDNEW_R6190
Type:single initiation site
Name:Grasp_1
Description:general receptor for phosphoinositides 1 associated scaffoldprotein
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_6.07142,869,768 - 142,869,828EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70554 AgrOrtholog
BIND 144392
  144395
  144396
  144397
  144399
BioCyc Gene G2FUF-31994 BioCyc
Ensembl Genes ENSRNOG00000007346 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00065023049 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000009979 ENTREZGENE
  ENSRNOT00000009979.4 UniProtKB/Swiss-Prot
  ENSRNOT00065039388 UniProtKB/Swiss-Prot
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:192254 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene Tamalin ENTREZGENE
PANTHER GENERAL RECEPTOR FOR PHOSPHOINOSITIDES 1-ASSOCIATED SCAFFOLD PROTEIN-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN TAMALIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tamalin PhenoGen
PROSITE PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000007346 RatGTEx
  ENSRNOG00065023049 RatGTEx
SMART PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP PDZ domain-like UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
UniProt A6KCN8 ENTREZGENE, UniProtKB/TrEMBL
  GRASP_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tamalin  trafficking regulator and scaffold protein tamalin  LOC102556412  uncharacterized LOC102556412  Data merged from RGD:7689805 737654 PROVISIONAL
2020-02-24 Tamalin  trafficking regulator and scaffold protein tamalin  Grasp  general receptor for phosphoinositides 1 associated scaffold protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-06-22 Grasp  general receptor for phosphoinositides 1 associated scaffold protein  Grasp  GRP1 (general receptor for phosphoinositides 1)-associated scaffold protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-18 LOC102556412  uncharacterized LOC102556412      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Grasp  GRP1 (general receptor for phosphoinositides 1)-associated scaffold protein    Grp1 (general receptor for phosphoinositides)-associated scaffold protein  Name updated 1299863 APPROVED
2002-06-10 Grasp  Grp1 (general receptor for phosphoinositides)-associated scaffold protein      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a 95-kDa postsynaptic density protein (PSD-95)/discs-large/ZO-1 (PDZ) domain, a leucine-zipper region, and a carboxyl-terminal PDZ binding motif 1299234
gene_function scaffold protein that binds group 1 metabotropic glutamate receptors at its amino-terminal PDZ domain and ARF-specific GEF protein at its C-terminus 70394
gene_function forms a complex with PSD-95 and Mint2/X11beta/X11L 1299234
gene_process has a role in associating group 1 metabotropic glutamate receptors and ARF-specific GEF proteins to mediate intracellular trafficking 70394