Shisa6 (shisa family member 6) - Rat Genome Database

Name: Shisa6
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Shisa6 (shisa family member 6) Ictidomys tridecemlineatus

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Symbol:

Shisa6

Name:

shisa family member 6

RGD ID:

12677458

Description:

ENCODES a protein that exhibits ionotropic glutamate receptor binding (inferred); PDZ domain binding (inferred); INVOLVED IN regulation of postsynaptic neurotransmitter receptor activity (ortholog); FOUND IN glutamatergic synapse (ortholog); postsynaptic density membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

LOC101959444

RGD Orthologs

Alliance Orthologs

More Info

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More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SHISA6 (shisa family member 6)	NCBI	Ortholog
Mus musculus (house mouse):	Shisa6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Shisa6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Shisa6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SHISA6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SHISA6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SHISA6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SHISA6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Shisa6 (shisa family member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	50,498,911 - 50,836,666 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936595	4,026,604 - 4,304,857 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936595	3,973,099 - 4,152,706 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

excitatory chemical synaptic transmission (IEA)

negative regulation of canonical Wnt signaling pathway (IEA)

postsynaptic neurotransmitter receptor diffusion trapping (IEA)

regulation of AMPA glutamate receptor clustering (IEA)

regulation of postsynaptic neurotransmitter receptor activity (ISO)

regulation of short-term neuronal synaptic plasticity (IEA)

spermatogenesis (IEA)

Cellular Component

AMPA glutamate receptor complex (IEA)

asymmetric, glutamatergic, excitatory synapse (IEA)

dendritic spine membrane (IEA)

glutamatergic synapse (IEA,ISO)

membrane (IEA)

postsynaptic density (IEA)

postsynaptic density membrane (IEA,ISO)

postsynaptic membrane (IEA)

Molecular Function

ionotropic glutamate receptor binding (IEA)

PDZ domain binding (IEA)

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Shisa6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	50,498,911 - 50,836,666 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936595	4,026,604 - 4,304,857 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936595	3,973,099 - 4,152,706 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SHISA6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	17	11,241,213 - 11,564,063 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	17	11,241,213 - 11,564,063 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	17	11,144,530 - 11,467,380 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	11,085,465 - 11,402,921 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	17	11,175,533 - 11,498,055 (+)	NCBI		Celera
Cytogenetic Map	17	p12	NCBI
HuRef	17	11,046,153 - 11,369,076 (+)	NCBI		HuRef
CHM1_1	17	11,154,593 - 11,476,588 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	17	11,149,418 - 11,472,179 (+)	NCBI		T2T-CHM13v2.0

Shisa6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	66,102,551 - 66,418,715 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	11	66,102,551 - 66,416,790 (-)	Ensembl		GRCm39 Ensembl
GRCm38	11	66,211,725 - 66,527,984 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	66,211,725 - 66,525,964 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	66,025,227 - 66,339,628 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	11	66,027,924 - 66,342,321 (-)	NCBI		MGSCv36	mm8
Celera	11	73,147,659 - 73,459,932 (-)	NCBI		Celera
Cytogenetic Map	11	B3	NCBI
cM Map	11	40.55	NCBI

Shisa6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	10	51,396,806 - 51,691,156 (-)	NCBI		GRCr8
mRatBN7.2	10	50,897,740 - 51,192,111 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	10	50,903,333 - 51,192,063 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	10	55,557,614 - 55,846,501 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	10	55,047,602 - 55,336,481 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	10	50,556,088 - 50,843,468 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	10	52,744,069 - 53,037,853 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	52,749,846 - 53,037,816 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	52,498,328 - 52,791,670 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	52,896,362 - 53,190,809 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	10	50,092,476 - 50,378,235 (-)	NCBI		Celera
Cytogenetic Map	10	q24	NCBI

Shisa6
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955467	5,707,561 - 5,998,910 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955467	5,701,521 - 5,998,910 (-)	NCBI	ChiLan1.0	ChiLan1.0

SHISA6
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	19	62,180,636 - 62,505,459 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	17	66,987,394 - 67,312,139 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	17	40,081,234 - 40,405,916 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	17	44,831,076 - 45,154,237 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	44,836,825 - 45,154,241 (-)	Ensembl	panpan1.1		panPan2

SHISA6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	35,420,981 - 35,701,654 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	35,424,242 - 35,707,012 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	35,562,452 - 35,839,708 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	35,530,964 - 35,808,773 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	35,530,964 - 35,809,747 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	35,496,683 - 35,775,486 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	35,452,119 - 35,729,778 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	35,635,323 - 35,913,764 (+)	NCBI		UU_Cfam_GSD_1.0

SHISA6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	12	55,757,837 - 56,024,760 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	58,849,892 - 58,898,751 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SHISA6
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	16	10,584,375 - 10,913,012 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666059	10,348,109 - 10,676,091 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Shisa6
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624786	13,697,330 - 14,001,891 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624786	13,697,178 - 14,007,891 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_021731316	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000662	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000021683 ⟹ ENSSTOP00000018011

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936595	4,026,604 - 4,304,857 (+)	Ensembl

RefSeq Acc Id:

XM_021731316 ⟹ XP_021586991

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405602	50,498,911 - 50,836,666 (+)	NCBI
SpeTri2.0	NW_004936595	3,973,099 - 4,152,706 (+)	NCBI

Sequence:

show sequence

ATGGCGGTGGTGAGGTGGATTTTCCAAGATGGTGATGGTTCTAGGGCAGTGATGGCTGCTCCTG
GTCAGAGATTGCCAGGCATGATTCACACCTGCTTGCTGCCCTCCTTGGTGCAGGCGGCGAGCCC
GCGGCTCTCAGCTCAGCTCGCTCTCTCTGTCCGCTGCGCTCCCGCCTCACTGCTGCCGCCGCCG
CCGCCTCTGCAGTCGCAGCCGGGCATGTGGTGCAGACGAGACAACGGTTCAGCCGGGCACGGGT
TTGGAGCTTGCCTTCCTCTCGGAGCGCTCAGCAAGTCCCAGAGCTCGCCGGGGCTGCCCAAGCA
GGTGGTGCAAGGATGCCGGGGTGTAGGAAAAGGTGCGGGCGAGGGCTGCAAGGAGTGGGATGTC
TCAGGGTCCTGGGGAGAAGAGGTGGCAGCTGTGAAAGCAGCTCTAGTGGCGGTAGCGGCGGCGG
CGGCGGCGGGCGCGACCGTCACCTACGAGACGTGTTGGGGCTACTACGACGTGAGCGGCCAGTA
TGACAAGGAGTTCGAATGTAACAACAGCGAGAGCGGTTACCTGTACTGCTGCGGCACCTGCTAT
TACCGCTTCTGCTGCAAGAAGCGCCACGAGAAGCTGGACCAGCGCCAGTGCACCAACTACCAGA
GCCCCGTGTGGGTACAGACGCCCAGCACCAAGGTAGTGTCGCCAGGGCCCGAGAACAAGTACGA
CCCCGAGAAGGACAAGACCAACTTCACCGTCTACATCACTTGCGGGGTGATTGCATTCGTCATC
GTGGCCGGCGTGTTCGCTAAGGTCTCCTATGATAAGGCCCACCGCCCTCCGCGGGAGATGAACA
TCCACAGGGCTCTGGCTGACATCTTAAGACAACAGGGACCAATCCCCATAGCACACTGTGAAAG
AGAAACTATCTCGGCTATCGATACCTCTCCCAAAGAGAACACTCCGGTCAGATCATCCTCCAAA
AACCACTACACCCCTGTGCGTACGGCCAAGCAGACCCCAGGGCATTATGGGAAGGATGCTTACC
GAAGTGGAGGACCCGATCTCCATAACTTCATCTCATCTGGATTTGTCACGTTAGGAAGAGGACA
CACGAAGGGTACAGTGGAAACCATTTTTTACTAAAAATACAGAGGTTGCCTAGGGAACCCCGGT
CTGAAAATTGGAAGATGGTATGGAGGCCAGAGGCTGGGTCCAAGACAGGAAGGAGTAAGTGGGG
TGGTTCCATGGCAGCTTGTCCTGGGGACGTGTGTGGCTTCCGACAGGAGTAACCAGGAAGTCAC
AGGGGTGACTTTAGAGGTCAATAGACTTCCGAGAGACATCCATCCTGTTCTGCCCACGGCGGGG
AAACAGGACTGAGATGCTCATGGCTCCCCATGGGAAGGGACCACAAACAGCGTGGTAGAAACAC
TACCAATGGATGTGGCAGCATTTGCCAAGTGTATGTCTGCCTCTCGGGGCTGTTATTCCCCTTC
TACTCGAAAGTCCCATTCTATACCCTGATGTCAATGTCCTGTACTGTGGGTTTCTAAGCCAGCG
TGCATGTGGAGAGTTTCCGCATCCTAAGTGTGTTTCTGTAAAACTCTATAATGTGGACCCAAAG
CCAGAGGTGGCGTAGACCTTTCTGCTGCAAGATGAAAGCTCACCTAGCTTTCTGTGAGCTGCTT
TAAGACCTAGCTGACAGCTTGCAGAGCATCTGGGCAGGGGGTCTGGAATCCTCCTCCACTCTCT
CTTTTGTTTAAACAAGCGTCCTACTAGTGTTGTGAGCATTCTGTCACCTCAAGAGTAACTGGAT
CCCTAACTCCTTGATTACCTTCCCAACACCTGTGTGCTGTTATCCACCAAATGTGAATCCTGTT
GTCAGGGGGAGTATATCCCTGTCTTCCTCTGAAATATGTGTCTGTTCCCAGTGTGAGTGAACAA
GGAACTTTGCAAATATTTTCTTACATTCCATGCATCTACTTTTTAAATCCTTCTGTGATGTTTG
TTCATCCTATAGAGAAAAACAAATCTGTATCTGTGTATGTACTTTCTGTTGTGTCTATTTGTGT
CTAAAT

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Protein Sequences


Protein RefSeqs	XP_021586991	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000018011.2
GenBank Protein	KAG3270000	(Get FASTA)	NCBI Sequence Viewer
	KAG3270001	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_021586991 ⟸ XM_021731316

- Sequence:

show sequence

MAVVRWIFQDGDGSRAVMAAPGQRLPGMIHTCLLPSLVQAASPRLSAQLALSVRCAPASLLPPP
PPLQSQPGMWCRRDNGSAGHGFGACLPLGALSKSQSSPGLPKQVVQGCRGVGKGAGEGCKEWDV
SGSWGEEVAAVKAALVAVAAAAAAGATVTYETCWGYYDVSGQYDKEFECNNSESGYLYCCGTCY
YRFCCKKRHEKLDQRQCTNYQSPVWVQTPSTKVVSPGPENKYDPEKDKTNFTVYITCGVIAFVI
VAGVFAKVSYDKAHRPPREMNIHRALADILRQQGPIPIAHCERETISAIDTSPKENTPVRSSSK
NHYTPVRTAKQTPGHYGKDAYRSGGPDLHNFISSGFVTLGRGHTKGTVETIFY

hide sequence

Ensembl Acc Id:

ENSSTOP00000018011 ⟸ ENSSTOT00000021683

Protein Domains

Shisa N-terminal

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000024068	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000021683.2	UniProtKB/TrEMBL
InterPro	Shisa	UniProtKB/TrEMBL
	Shisa_N	UniProtKB/TrEMBL
NCBI Gene	Shisa6	ENTREZGENE
PANTHER	PROTEIN SHISA-6	UniProtKB/TrEMBL
	PTHR31774	UniProtKB/TrEMBL
Pfam	Shisa	UniProtKB/TrEMBL
UniProt	I3N0W5_ICTTR	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-26	Shisa6	shisa family member 6	LOC101959444	protein shisa-6 homolog	Symbol and/or name change	5135510	APPROVED
2021-03-25	LOC101959444	protein shisa-6 homolog	Shisa6	shisa family member 6	Data merged from RGD:12984841	737654	PROVISIONAL
2017-07-13	LOC101959444	protein shisa-6 homolog	Shisa6	shisa family member 6	Symbol and/or name change	5135510	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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