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

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Gene: Tamalin (trafficking regulator and scaffold protein tamalin) Mus musculus
Analyze
Symbol: Tamalin
Name: trafficking regulator and scaffold protein tamalin
RGD ID: 733546
MGI Page MGI
Description: Predicted to enable PDZ domain binding activity; identical protein binding activity; and small GTPase binding activity. Involved in regulation of neurotransmitter receptor transport, endosome to postsynaptic membrane. Acts upstream of or within signal transduction. Located in plasma membrane. Is active in Schaffer collateral - CA1 synapse and glutamatergic synapse. Orthologous to human TAMALIN (trafficking regulator and scaffold protein tamalin).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: general receptor for phosphoinositides 1-associated scaffold protein; Grasp; GRP1-associated scaffold protein; ta
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
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
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

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. Mouse MP Annotation Import Pipeline RGD automated import 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. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:8889548   PMID:10828067   PMID:12207967   PMID:12477932   PMID:14610273   PMID:15173175   PMID:15489334   PMID:17766434   PMID:17967808   PMID:18575228   PMID:18799693   PMID:21873635  
PMID:22396401   PMID:22609160   PMID:24407555   PMID:26765568   PMID:28285821   PMID:32325033   PMID:32376687   PMID:36362204   PMID:36809245  


Genomics

Comparative Map Data
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
(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
(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
(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
250 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:250
Count of miRNA genes:217
Interacting mature miRNAs:226
Transcripts:ENSMUST00000000543
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567270698101270847Mouse
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78601103102901704Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578601103102901704Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585896437104073951Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585896437104073951Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585896437104073951Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585901546104073951Mouse
4141581Dshv1_mdorsal hippocampal volume 1 (mouse)Not determined92788640103425899Mouse
14700689Carg5_mCandida albicans resistance gene 5 (mouse)1597697881103008427Mouse
11528547Sluc34_msusceptibility to lung cancer 34 (mouse)1597884933102896555Mouse

Markers in Region
RH136441  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3815101,222,287 - 101,222,479UniSTSGRCm38
MGSCv3715101,052,718 - 101,052,910UniSTSGRCm37
Celera15103,370,613 - 103,370,805UniSTS
Cytogenetic Map15F2UniSTS
Cytogenetic Map15F3UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000000543   ⟹   ENSMUSP00000000543
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl15101,122,069 - 101,130,637 (+)Ensembl
GRCm38.p6 Ensembl15101,224,188 - 101,232,756 (+)Ensembl
RefSeq Acc Id: NM_019518   ⟹   NP_062391
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915101,122,088 - 101,130,637 (+)NCBI
GRCm3815101,224,207 - 101,232,756 (+)ENTREZGENE
MGSCv3715101,054,638 - 101,063,187 (+)RGD
Celera15103,372,533 - 103,381,084 (+)RGD
cM Map15 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006521196   ⟹   XP_006521259
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3915101,125,598 - 101,130,637 (+)NCBI
GRCm3815101,227,728 - 101,232,756 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_062391   ⟸   NM_019518
- UniProtKB: Q9JKL0 (UniProtKB/Swiss-Prot),   Q9JJA9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006521259   ⟸   XM_006521196
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000000543   ⟸   ENSMUST00000000543
Protein Domains
PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JJA9-F1-model_v2 AlphaFold Q9JJA9 1-392 view protein structure

Promoters
RGD ID:6825654
Promoter ID:MM_KWN:19773
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:AK038079_A330009N23RIK,   NM_019518
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3615101,054,611 - 101,055,332 (-)MPROMDB
RGD ID:8685100
Promoter ID:EPDNEW_M20580
Type:multiple initiation site
Name:Grasp_1
Description:Mus musculus GRP1 -associated scaffold protein , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3815101,224,225 - 101,224,285EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1860303 AgrOrtholog
Ensembl Genes ENSMUSG00000000531 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000000543 ENTREZGENE
  ENSMUST00000000543.6 UniProtKB/Swiss-Prot
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot
InterPro PDZ UniProtKB/Swiss-Prot
  PDZ_sf UniProtKB/Swiss-Prot
KEGG Report mmu:56149 UniProtKB/Swiss-Prot
MGD MGI:1860303 ENTREZGENE
NCBI Gene 56149 ENTREZGENE
PANTHER GENERAL RECEPTOR FOR PHOSPHOINOSITIDES 1-ASSOCIATED SCAFFOLD PROTEIN-RELATED UniProtKB/Swiss-Prot
  PROTEIN TAMALIN UniProtKB/Swiss-Prot
Pfam PDZ UniProtKB/Swiss-Prot
PhenoGen Tamalin PhenoGen
PROSITE PDZ UniProtKB/Swiss-Prot
SMART PDZ UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50156 UniProtKB/Swiss-Prot
UniProt GRASP_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q9JKL0 ENTREZGENE
UniProt Secondary Q9JKL0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-10-12 Tamalin  trafficking regulator and scaffold protein tamalin  Grasp  GRP1 (general receptor for phosphoinositides 1)-associated scaffold protein  Symbol and/or name updated 27372883 PROVISIONAL