TMIE (transmembrane inner ear) - Rat Genome Database

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

Gene: TMIE (transmembrane inner ear) Sus scrofa

Analyze

Symbol:

TMIE

Name:

transmembrane inner ear

RGD ID:

14215553

Description:

INVOLVED IN inner ear morphogenesis (ortholog); sensory perception of sound (ortholog); ASSOCIATED WITH autosomal recessive nonsyndromic deafness (ortholog); autosomal recessive nonsyndromic deafness 6 (ortholog); genetic disease (ortholog); FOUND IN membrane (inferred); INTERACTS WITH deoxynivalenol

Type:

ncrna (Ensembl: protein-coding)

RefSeq Status:

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TMIE (transmembrane inner ear)	HGNC	Ensembl, NCBI
Mus musculus (house mouse):	Tmie (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Tmie (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Tmie (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TMIE (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TMIE (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tmie (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TMIE (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tmie (transmembrane inner ear)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	29,624,154 - 29,633,013 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	29,623,905 - 29,633,016 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	33,028,518 - 33,030,240 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal recessive nonsyndromic deafness (ISO)

autosomal recessive nonsyndromic deafness 6 (ISO)

genetic disease (ISO)

Hearing Loss (ISO)

Progressive Microcephaly with Seizures and Cerebral and Cerebellar Atrophy (ISO)

sensorineural hearing loss (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

deoxynivalenol (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

inner ear morphogenesis (IBA,IEA,ISO)

sensory perception of sound (IBA,IEA,ISO)

Cellular Component

membrane (IEA)

Molecular Function

protein binding (ISO)

References

Genomics

Comparative Map Data

TMIE
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	29,624,154 - 29,633,013 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	29,623,905 - 29,633,016 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	33,028,518 - 33,030,240 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TMIE
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	46,693,778 - 46,710,886 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	46,694,528 - 46,710,886 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	46,735,268 - 46,752,376 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	46,717,827 - 46,727,205 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	3	46,717,826 - 46,727,205	NCBI
Celera	3	46,680,576 - 46,691,109 (+)	NCBI		Celera
Cytogenetic Map	3	p21.31	NCBI
HuRef	3	46,785,701 - 46,795,263 (+)	NCBI		HuRef
CHM1_1	3	46,692,939 - 46,702,529 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	3	46,709,892 - 46,726,971 (+)	NCBI		T2T-CHM13v2.0

Tmie
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	110,694,755 - 110,709,141 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	9	110,694,779 - 110,709,181 (-)	Ensembl		GRCm39 Ensembl
GRCm38	9	110,865,687 - 110,880,073 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	110,865,711 - 110,880,113 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	110,768,550 - 110,782,587 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	9	110,710,862 - 110,724,899 (-)	NCBI		MGSCv36	mm8
Celera	9	110,587,099 - 110,606,043 (-)	NCBI		Celera
Cytogenetic Map	9	F2	NCBI
cM Map	9	60.79	NCBI

Tmie
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	119,728,123 - 119,743,219 (-)	NCBI		GRCr8
mRatBN7.2	8	110,849,713 - 110,864,803 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	110,850,034 - 110,864,803 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	8	116,464,077 - 116,478,809 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	114,663,287 - 114,678,021 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	112,506,107 - 112,520,841 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	119,142,116 - 119,157,071 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	119,142,434 - 119,157,071 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	8	118,480,524 - 118,495,446 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	115,254,502 - 115,269,123 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	8	110,132,596 - 110,147,266 (-)	NCBI		Celera
Cytogenetic Map	8	q32	NCBI

Tmie
(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_004955420	25,428,503 - 25,435,701 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955420	25,428,542 - 25,435,701 (-)	NCBI	ChiLan1.0	ChiLan1.0

TMIE
(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	2	46,656,687 - 46,666,796 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	46,661,457 - 46,671,515 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	46,590,527 - 46,608,981 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

TMIE
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	42,052,607 - 42,061,424 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	42,053,817 - 42,061,262 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	41,968,797 - 41,977,845 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	20	42,535,195 - 42,544,248 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	20	42,535,201 - 42,543,855 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	20	41,776,485 - 41,785,526 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	20	42,177,543 - 42,186,577 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	20	42,458,570 - 42,467,619 (-)	NCBI		UU_Cfam_GSD_1.0

Tmie
(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_024405118	200,982,111 - 200,991,469 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936596	531,254 - 541,693 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936596	531,260 - 540,608 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMIE
(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	22	8,114,995 - 8,133,827 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666041	159,016,256 - 159,033,772 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tmie
(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_004624730	74,498,281 - 74,505,041 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624730	74,498,257 - 74,506,180 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in TMIE
212 total Variants

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	endocrine system	nervous system	reproductive system
High
Medium		3	5
Low			16	1
Below cutoff	1		2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XR_001300163	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000085	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK396982	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CU856704	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000056568 ⟹ ENSSSCP00000059424

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	13	29,624,154 - 29,633,013 (+)	Ensembl

RefSeq Acc Id:

XR_001300163

Type:

NON-CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	13	29,623,905 - 29,633,016 (+)	NCBI

Sequence:

show sequence

CCTGGGTCCAGTAAGGTTTTTCAAATTCGTAACGTCAGAATGGGGAGGGCTTCTTAGATCAGCA
GATTCCAGCCCCTCCCGTTGTCCCAAATGGATAAACTGAGGCCAGACTGCGGAAGGGAGGGTGG
AACCTGTTGTTCAAGGACCCGACCCCAGACTGTCCTCCCTCTCACTCACTCCCACCCCTCTGTC
GTTGGTACAGTTGGGGGGGGGGGGAGTCTAGGGTGTGATCTCCGGAGGGGGTGGGCCCTCCACC
CGGAGAGATGTGGGGGCGGGCAGCAGAAGAACCAGACACCGCTGATGAATAAATGATGCCCACT
AGCAGCCTGAGATCAGATCGCCAAGCCGAGCGCCTGCTGGCCCCGGGGGCAGTCCCCGGGCCAA
GGCGGCCCAGCCCGCATCCCTCTGCGCCCCCGACCTGCCGCCAAGCTGCGCTGGGAGCCCGAAG
ATGGCGGGGCAGTGGCGAGGCACCGGGCGGCTCTGGGCGCTGGGCGGCGCCGTGCTGGAGGTTT
GCTTCGCTGTGGTCGCCGGGCAGTTGGTGGAGCCCAGCACAGCACCACCCAAGCCCAAGCCACC
CCCGCTGACCAAGGAGACGGTGGTGTTCTGGGACATGCGCCTGTGGCACGTGGTGGGCATCTTC
TCGCTCTTCGTGTTGTCTATCATTATCACTCTTTGCTGCATCTTCAACTGCCGCGTGCCACGGA
CCCGGAAGGAGATTGAGGCCCGGTACCTGCAGCGCAAAGCAGCCAAGATGTACACAGACAAACT
GGAGACTGTGCCACCTCTCAATGAGCTCACAGAAATCCCCGGAGAGGATAAGAAAAAGAAGAAG
AAGGACAGTGTGGATACAGTGGCCATTAAGGTGGAGGAGGATGAGAAAAAGGAGGCCAAGAAGA
AGAAAGGCGAGAAATAGGAGAGCTTCCTGGAGGTGGCTCCAGACATCTTAGACTCCAAGCTCAC
ACGTGGACCATAGAGGTTGCAGATCATCCTCCTCCAGCTCAGAGAGGGTTGCTGAAGCCCAGGA
CCCTGTCTTAGAGCCTATCAGGGCAGGGACAAGACTACATGAGGTGTTTTGCCTCCCGGCCTGG
ACTCCACTCCTTTCATCCCGTCCACATGATCGCCCAGCAGTGGTGGTCTTGGGCCACTCTCCCT
CTGTAGATCCAAAGTGGCCTTCACCTACATGCTTCTGTTCCCTCTTCTGCCAGGAACAGCAGTG
ACTAAAGGGGTAATGGGATGTGGCTTTTCTTCTGAAAGGGGATGGCTGACCTTGATGGGCCATA
GGTAAGGCCTCACCAGGCTGGTCACAAGAAGGGATAGGGCCAATGGGGGAAGCTATGGCAGCAG
GAGGTTCTCAGACTTGGCTGGATAGCAGCTTTGGTGGGGAGGGACTGCCCCAAGCCTGGCAGGG
CTTCTGGCACAAGGCAGGGCAGTGAGGGGGACCAGAAGCAGAACCCCTAGCCCAATAGATGCCA
AGCTCCAGGCAATAGATGTACCAGTTTTACATGTAGTGATGCCGCTGAGGCTGCTGGGGGGCCT
AGCATGAGGCCTGAGGGCTGAAGGGGCAGTTCAAGGGTGTAGAAGGCTGAGGCCAGTGGGCCAG
AAGGAAAAGGAAAACTGCCACTTGGGCCCAATATTGGGAATCCAGGGAATATTTAAGAAGCCAA
GGGGGGCCTCGGGCAGTTCTGGTAGCCCTTTCTATACTCAGCCATGATGGCAGGTGTTAGGGCC
CCATGAGATCACTTCAGGGAGCAGCTAGGGATTGAGGCAGCAGCCTTCCACCTGCTGAATATGA
CAGCACACCACTTCCTCTTCTATTCTCAACCATGGTGCCTAAAAGAAGCACTGCTGATCAGAAG
ATGAAGACCCAAACTGGACATGGGGACTGAATCCTTGGACAGGGGAGATACAGAGAAGGGTTTC
TGGATGGCAGCGAAAATCAGCTGAAGTACTCAAACCTGGGCCTGGTACTCAAACACCAGAGGTT
TCCAAGCTGCTAGCAAAGCTCAGGCTGCCTCTGCAGCCTGTGGAGATCTGTAAATAAAGCTGAG
TGCCTTCTCATA

hide sequence

Protein Sequences


Ensembl Protein	ENSSSCP00000059424.1

RefSeq Acc Id:

ENSSSCP00000059424 ⟸ ENSSSCT00000056568

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000038857	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000056568	ENTREZGENE
	ENSSSCT00000056568.1	UniProtKB/TrEMBL
InterPro	TMIE	UniProtKB/TrEMBL
NCBI Gene	TMIE	ENTREZGENE
PANTHER	PTHR28635	UniProtKB/TrEMBL
	TRANSMEMBRANE INNER EAR EXPRESSED PROTEIN	UniProtKB/TrEMBL
Pfam	TMIE	UniProtKB/TrEMBL
UniProt	A0A287BSC7_PIG	UniProtKB/TrEMBL

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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