Tmed7 (transmembrane p24 trafficking protein 7)

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Gene: Tmed7 (transmembrane p24 trafficking protein 7) Rattus norvegicus

Analyze

Symbol:

Tmed7

Name:

transmembrane p24 trafficking protein 7

RGD ID:

727954

Description:

Predicted to be involved in Golgi organization; endoplasmic reticulum to Golgi vesicle-mediated transport; and intracellular protein transport. Predicted to localize to several cellular components, including COPII-coated ER to Golgi transport vesicle; Golgi apparatus; and endoplasmic reticulum-Golgi intermediate compartment. Orthologous to several human genes including TMED7-TICAM2 (TMED7-TICAM2 readthrough); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol; 5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC252889; p24 family protein gamma-3; p24gamma3; p27; transmembrane emp24 domain-containing protein 7; transmembrane emp24 protein transport domain containing 7; UV36Sp6 ultraviolet B radiation-activated UV36

RGD Orthologs

Human

Mouse

Bonobo

Dog

Squirrel

Pig

Green Monkey

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):	TMED7 (transmembrane p24 trafficking protein 7)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, PhylomeDB, Treefam
Mus musculus (house mouse):	Tmed7 (transmembrane p24 trafficking protein 7)	HGNC	Treefam, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, OrthoDB, Ensembl
Pan paniscus (bonobo/pygmy chimpanzee):	TMED7 (transmembrane p24 trafficking protein 7)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TMED7 (transmembrane p24 trafficking protein 7)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tmed7 (transmembrane p24 trafficking protein 7)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TMED7 (transmembrane p24 trafficking protein 7)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	TMED7 (transmembrane p24 trafficking protein 7)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	TMED7-TICAM2 (TMED7-TICAM2 readthrough)	HGNC	Ensembl, Treefam
Alliance orthologs ³
Homo sapiens (human):	TMED7 (transmembrane p24 trafficking protein 7)	Alliance	DIOPT (Ensembl Compara\|HGNC\|OMA\|TreeFam)
Mus musculus (house mouse):	Tmed7 (transmembrane p24 trafficking protein 7)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	TMED7-TICAM2 (TMED7-TICAM2 readthrough)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	tmed7 (transmembrane p24 trafficking protein 7)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	F57B10.5	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	p24-1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Saccharomyces cerevisiae (baker's yeast):	ERP3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	18	39,318,564 - 39,325,640 (-)	NCBI
Rnor_6.0 Ensembl	18	40,579,182 - 40,586,260 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	18	40,579,182 - 40,586,260 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	18	40,233,821 - 40,240,942 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	40,800,887 - 40,808,002 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	18	40,838,427 - 40,838,519 (+)	NCBI
Celera	18	37,570,612 - 37,577,688 (-)	NCBI		Celera
Cytogenetic Map	18	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

Chemical and Drug Induced Liver Injury (ISO)

cholestasis (ISO)

Hereditary Neoplastic Syndromes (ISO)

Neurodevelopmental Disorders (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

3,3',4,4'-tetrachlorobiphenyl (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-chloropropane-1,2-diol (EXP)

5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole (EXP)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

aflatoxin B1 (ISO)

aflatoxin M1 (ISO)

amiodarone (EXP)

benzbromarone (EXP)

bisphenol A (EXP)

cisplatin (ISO)

clofibrate (EXP)

cyclosporin A (ISO)

flutamide (EXP)

glycidol (EXP)

L-ethionine (EXP)

nimesulide (EXP)

omeprazole (EXP)

phenobarbital (ISO)

pirinixic acid (EXP)

piroxicam (ISO)

propiconazole (ISO)

rimonabant (ISO)

sodium arsenate (ISO)

sodium fluoride (ISO)

tetrachloromethane (ISO)

thioacetamide (EXP)

troglitazone (ISO)

tunicamycin (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

endoplasmic reticulum to Golgi vesicle-mediated transport (IBA)

Golgi organization (IBA)

intracellular protein transport (IBA)

Cellular Component

COPI-coated vesicle membrane (IEA)

COPII-coated ER to Golgi transport vesicle (IBA)

endoplasmic reticulum (IBA,ISO,ISS)

endoplasmic reticulum membrane (IEA)

endoplasmic reticulum-Golgi intermediate compartment (IBA,ISO,ISS)

endoplasmic reticulum-Golgi intermediate compartment membrane (IEA)

ER to Golgi transport vesicle membrane (IEA)

Golgi apparatus (IBA,ISO,ISS)

integral component of membrane (IEA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	NCBI rat LocusLink and RefSeq merged data October 15, 2003
3.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	RGD automated import pipeline for gene-chemical interactions
5.	RGD, Sept. 2003

Additional References at PubMed

PMID:10359607	PMID:12237308	PMID:23376485

Genomics

Comparative Map Data

Tmed7
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	18	39,318,564 - 39,325,640 (-)	NCBI
Rnor_6.0 Ensembl	18	40,579,182 - 40,586,260 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	18	40,579,182 - 40,586,260 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	18	40,233,821 - 40,240,942 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	40,800,887 - 40,808,002 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	18	40,838,427 - 40,838,519 (+)	NCBI
Celera	18	37,570,612 - 37,577,688 (-)	NCBI		Celera
Cytogenetic Map	18	q11	NCBI

TMED7
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	5	115,613,210 - 115,632,992 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	5	115,613,210 - 115,626,036 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	5	114,948,907 - 114,961,733 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	5	114,948,905 - 114,961,876 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	114,977,102 - 114,989,595 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	5	114,977,101 - 114,989,595	NCBI
Celera	5	110,898,179 - 110,911,150 (-)	NCBI
Cytogenetic Map	5	q22.3	NCBI
HuRef	5	110,130,510 - 110,143,485 (-)	NCBI		HuRef
CHM1_1	5	114,381,532 - 114,394,506 (-)	NCBI		CHM1_1

Tmed7
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	18	46,718,995 - 46,730,602 (-)	NCBI	GRCm39		mm39
GRCm38	18	46,585,928 - 46,597,535 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	18	46,560,235 - 46,597,535 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	18	46,745,582 - 46,757,189 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	18	46,710,988 - 46,722,852 (-)	NCBI			mm8
Celera	18	47,945,556 - 47,957,160 (-)	NCBI		Celera
Cytogenetic Map	18	C	NCBI

TMED7
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	5	116,766,470 - 116,779,513 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	116,766,470 - 116,779,513 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	5	110,970,162 - 110,983,414 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

TMED7
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	11	5,342,265 - 5,356,828 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	11	5,342,265 - 5,356,828 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Tmed7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936742	779,964 - 791,738 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMED7
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	119,788,483 - 119,804,463 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	119,794,608 - 119,804,406 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	124,682,078 - 124,691,898 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TMED7
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	23	18,864,021 - 18,875,089 (-)	NCBI
ChlSab1.1 Ensembl	23	18,866,758 - 18,874,975 (-)	Ensembl

Position Markers

RH136986

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	18	40,579,247 - 40,579,451	NCBI	Rnor6.0
Rnor_5.0	18	40,233,886 - 40,234,090	UniSTS	Rnor5.0
RGSC_v3.4	18	40,800,952 - 40,801,156	UniSTS	RGSC3.4
Celera	18	37,570,677 - 37,570,881	UniSTS
Cytogenetic Map	18	q11	UniSTS

RH140497

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	18	40,581,673 - 40,581,782	NCBI	Rnor6.0
Rnor_5.0	18	40,236,312 - 40,236,421	UniSTS	Rnor5.0
RGSC_v3.4	18	40,803,378 - 40,803,487	UniSTS	RGSC3.4
Celera	18	37,573,103 - 37,573,212	UniSTS
Cytogenetic Map	18	q11	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2299160	Iddm35	Insulin dependent diabetes mellitus QTL 35	2.79		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	18	4407513	62570466	Rat
2312568	Glom21	Glomerulus QTL 21	2	0.005	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	18	5430134	41781619	Rat
2313082	Bss85	Bone structure and strength QTL 85	0.8	0.0001	long bone metaphysis morphology trait (VT:0000133)	tibia midshaft total cross-sectional area (CMO:0001715)	18	14678852	59678852	Rat
1331753	Bp231	Blood pressure QTL 231	3.643		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	18	15539427	53861431	Rat
1358358	Sradr6	Stress Responsive Adrenal Weight QTL 6	2.49		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	18	15539427	61499684	Rat
6903359	Bp355	Blood pressure QTL 355	3.6		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	18	15539671	61985648	Rat
2293708	Bss46	Bone structure and strength QTL 46	8.8	0.0001	lumbar vertebra morphology trait (VT:0010494)	lumbar vertebra cortical cross-sectional area (CMO:0001690)	18	15695872	68524999	Rat
1578661	Bss20	Bone structure and strength QTL 20	3.7		femur morphology trait (VT:0000559)	femoral neck cross-sectional area (CMO:0001697)	18	15695872	87080053	Rat
1578667	Bss21	Bone structure and strength QTL 21	3.5		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	18	15695872	87080053	Rat
1358193	Emca2	Estrogen-induced mammary cancer QTL 2	1.6		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	18	19031030	68436105	Rat
1600373	Mamtr6	Mammary tumor resistance QTL 6			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	18	20285758	87080053	Rat
7387267	Uae42	Urinary albumin excretion QTL 42		0.61	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	14	21639491	66639491	Rat
1331741	Bp232	Blood pressure QTL 232	3.59112		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	22603736	87074531	Rat
6903353	Bp353	Blood pressure QTL 353	2.8		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	22604764	61985648	Rat
1641923	Colcr8	Colorectal carcinoma resistance QTL 8	3.1	0.0014	intestine integrity trait (VT:0010554)	poorly differentiated malignant colorectal tumor number (CMO:0002076)	18	23184227	53861431	Rat
1331733	Bp233	Blood pressure QTL 233	3.97196		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	25961026	81761656	Rat
2325839	Bp348	Blood pressure QTL 348		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	26743404	43659626	Rat
2301413	Bp318	Blood pressure QTL 318		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	27743024	48499517	Rat
12904673	Cm127	Cardiac mass QTL 127		0.005	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	18	27743024	48499517	Rat
12904675	Am19	Aortic mass QTL 19		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	18	27743024	48499517	Rat
12904677	Kidm72	Kidney mass QTL 72		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	18	27743024	48499517	Rat
12904668	Bw188	Body weight QTL 188		0.03	body mass (VT:0001259)	body weight (CMO:0000012)	18	27743024	48499517	Rat
12904669	Cm125	Cardiac mass QTL 125		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	18	27743024	48499517	Rat
12904670	Cm126	Cardiac mass QTL 126		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	18	27743024	48499517	Rat
2300157	Bmd66	Bone mineral density QTL 66	13.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	18	30533614	75533614	Rat
2300177	Bmd65	Bone mineral density QTL 65	19.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	18	30533614	75533614	Rat
2293704	Bss35	Bone structure and strength QTL 35	4.59	0.0002	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	18	30533614	75533614	Rat
9590318	Scort22	Serum corticosterone level QTL 22	7.64	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	18	31361341	76361341	Rat
1331754	Bp230	Blood pressure QTL 230	4.61609		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	31361341	76361341	Rat
9589816	Gluco68	Glucose level QTL 68	7.25	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	18	31361341	76361341	Rat
8694378	Bw157	Body weight QTL 157	3.59	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	18	31361341	76361341	Rat
738005	Anxrr11	Anxiety related response QTL 11	3.4		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	18	31608424	76608424	Rat
61383	Bp47	Blood pressure QTL 47	17.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	18	31728373	62570429	Rat
1331776	Bp225	Blood pressure QTL 225	2.829		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	18	32670352	61985812	Rat
1331774	Bp226	Blood pressure QTL 226	4.41065		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	61985812	Rat
1331742	Bp228	Blood pressure QTL 228	3.88752		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	61985812	Rat
1331798	Bp224	Blood pressure QTL 224	3.53873		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	61985812	Rat
1331727	Bp237	Blood pressure QTL 237	3.053		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670352	63897621	Rat
61429	Cia17	Collagen induced arthritis QTL 17	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	18	32670352	73016546	Rat
2303120	Mamtr8	Mammary tumor resistance QTL 8		0.001	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	18	32670352	87080053	Rat
6903347	Bp350	Blood pressure QTL 350	4.4		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	18	32670473	61985648	Rat
631274	Sprol1	Serum protein level QTL 1	5.3		blood total protein amount (VT:0005567)	serum total protein level (CMO:0000661)	18	32704022	80696226	Rat
631518	Bw11	Body weight QTL 11	2.8		body mass (VT:0001259)	body weight (CMO:0000012)	18	38221919	83221919	Rat
61367	Iddm4	Insulin dependent diabetes mellitus QTL 4	2.33	0.0074	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	18	40375769	85375769	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	341
Count of miRNA genes:	190
Interacting mature miRNAs:	247
Transcripts:	ENSRNOT00000004942
Prediction methods:	Microtar, Miranda, Targetscan
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.

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	3	42	57	41	19	41	8	10	74	35	41	11	8
Low		1						1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001105758	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473971	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	EF076767	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ229138	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ233300	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000301	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U12474	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U12520	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000004942 ⟹ ENSRNOP00000004942

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	18	40,579,182 - 40,586,260 (-)	Ensembl

RefSeq Acc Id:

NM_001105758 ⟹ NP_001099228

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	18	39,318,564 - 39,325,640 (-)	NCBI
Rnor_6.0	18	40,579,182 - 40,586,260 (-)	NCBI
Rnor_5.0	18	40,233,821 - 40,240,942 (-)	NCBI
RGSC_v3.4	18	40,800,887 - 40,808,002 (-)	RGD
Celera	18	37,570,612 - 37,577,688 (-)	RGD

Sequence:

show sequence

TTCCGTTAGATCTCGCCGTACTTCCGGTCAGCGAGGCCTCTTCCTCCGCTGGTTTGCCGGGTCT
CCTACCACTGCCCCTCAGGTTTTCCTAGAGCGGCTCGGGTACCTCATTGCGTCTTTCCGGAAGC
CTGCGCTGGTTCCTCGTCGCACGCTTCACTAAGGCTCGCGGGCCGGTAGGGGCTGGGCCTGCCG
CGCGTGTTGAGGCCCCGCAGCTCCGTTGAGGCCGCCGCGCTGTCAGGATGCCGCGGCCGAGGTC
GGCGACTTGCTGGGCGGCCGCCGCAGGCCGTTGGAGTTGCAGACTGCTTGCTCTACTGTTGCTA
CTGCTACTGCCGGGTCCGAGCGGCGGCTCCGAGATCACTTTTGAGCTGCCGGACAATGCCAAGC
AGTGCTTCTACGAGGACATCACTCAGGGCACCAAGTGTACCCTAGAGTTCCAGGTGATTACTGG
TGGTCACTACGATGTAGATTGTCGATTGGAAGATCCTGATGGTAAAGTGTTATACAAGGAGATG
AAGAAACAGTATGATAGTTTCACCTTCACAGCCTCCAAAAATGGGACATACAAATTTTGCTTCA
GCAATGAGTTTTCTACTTTCACACACAAAACGGTGTATTTCGATTTCCAAGTTGGAGAAGACCC
ACCTTTGTTTCCCAGTGAGAACCGAGTCAGTGCCCTTACCCAGATGGAATCTGCTTGTGTTTCC
ATTCATGAAGCTCTGAAGTCTGTCATTGACTATCAGACACATTTCCGACTACGGGAAGCTCAAG
GCCGAAGCCGAGCAGAGGATCTAAATACAAGAGTGGCCTACTGGTCGGTGGGAGAAGCCCTCAT
TCTTCTTGTGGTTAGCATAGGGCAGGTGTTTCTCCTGAAAAGTTTTTTCTCAGATAAAAGAACC
ACCACAACTCGCGTTGGATCATAACTACACTTTGAGATGCACCATTGCCACCGTAATATTACTG
TCCTCAATTTTAGGTACTGAAGAACTTAACATTGGCAACATTCTAAAACCCTGCTCATACTTGT
TGAGAAAGCTGTACAGTGCATATCCCCATGGGGAGAGGACATCTTTTTTATTTGTAAAGGTGGA
AAACTGGACCTTAATGCAGCTATTCATATGAAATATCTAACACCAATGATCTACTTTTTCTTGG
TTTATATTTACTCTTCATACACTAAACTTTGGTATTCTGATTCCTTTTAACCATTTAAAAGTAC
TTTTCTTAATAGGTAGTTGATACTTAAAAAAAAATCTTAGATTTATTGTCTGTGTGTATTACAG
AGGAAATAAACTGCCTTTTAATTGTTTATAGTGAATAAAGTTGTGTTTTTAAGAAACCAAATGT
GATTAACTGTAGCCAAGCCCTATTCTGCACTGCTTAATTTTATGGTGGAAAGTAATCTACCATA
GAACTTTCAGTTAATATTGATACACTTTTCATTGCTATATCATGATATAATTTATTTCTTGCTA
GTTTGAAAAATGTACAGGTTTTGTTTTTTTTTCCCCCATTCTATGATTTATAACTAGCTACATT
ATCTGTTTAGAAGTGTTACCACATAGAAAATAGCATAATAGACTTAAAAATCAGACTGTTGTAA
CTGTTAGGATAAAGAATAATATGAGACACTGCGGTATGGTAAATGAAATAGAAATATTTTTAGT
GAACATTTTGTCTGAAATTGCATTTTGGGGCTTTTATCAAGAAGAGAGGACCTGAGTCATGTGT
GCATTCTGTTGAACTAGTTCTTGGTCCAGTCATTCCCAGCTTAGGTCAGCAGTTACAATCTAGT
GTCACATAAGTGCCATATGTCTTCTCCTCATGATGTGATGCACTGAGGAGTTCATTTTTATCTG
TCTTCATTTTGTCTTGTTTCTACAGTCTACACCTAAATTTAGAATACTGTGAATGTTTCCTATT
TGGAGAGGTATAGAGTTGTTTTGTACTGTTTGTGTCTTGTACCTTCTGTGGATTAAGCTGATTA
AAATGAGATTTTGATCTAAGTATTCAGAATACAGTACATGATGATGGAAATTTGTATAGGCAAG
AAGGCTTTTTTAAAAGTTAAAAAACACAGCAGTTGCTTTTCAGCCATGCCTTTTAACCACAGGT
GATGAGAACTAAATGAGTCAGTCTCCTGTTGTAGAGACTTTCCTATGACACTATAGGATAATGA
CTGACTAGCAATTTTAGTCACTTAACCATTACTGACTAGAACTTAACTAAGCCATCTTAAAATG
CGCTTAGGTGCGTGCACACACTTCTGCATGCAAGAGCAAAATAAATTCAAGTTGTCTTGCTTAC
TAATTTCAGATGTCACAGTGTACGAGTGAACATGTTTTCAACCTTTTAGGATTCTTGAAGACCA
GATCACCTACTCCTTAGACATTTACAGATTAAGAAGAGAAGTTTAAGATTTTTCAGACTATCCA
TTTGAGTTCTTGTATTGAAGTCCTATGGCTTTTTAAATGTTCCATCTACTTAGTCCGTCATGAA
TGTTTTAGCACCAATGTTAATGTGATTGCTAAGCACAGGCATATGTAAAATGCCATGTCTGCTT
GCTAGTGGACTCTTTGGATACTTACACTGTAATTAAATGGAGTCAGGTATAGATTTTGCCAGGC
TTGGCATAAATGATGCCCACATTTAATCTGTGCCTCTCAAAATGTCATGATAGTAAACTCTTAC
TATATATCATTTTTAATGAGACTATAGATTCAAACTTGAAATCACCAGTTACCCAGTGTCAGAA
GTAATATGAATTTAGTTTCGTCTCTCAGTAGCTGGCTAAATTTTGACAGCTATCTGTCCAACTG
GTATGATTATATAAGAAAATAGATACCCATATATAAATGTTATATGATATTTTTCTTCCTCCTA
TGACATAATTCATAGCTTGTCTTTTTTTCTGTAATTCTTACATAAGTTGTTGCAGGAGTTTGAA
TTTCCCAAATATTTTTGTTTGGTCATATGACTCAATACATATTTGAATATCATAATTGTATATA
TTTTTAAAGTAGAATAAATAATGGAAAGCAACTTGATACATGAATTTATACTAAAATTCCACCT
GGATAAAGATATGTTTTACAATATTGCTTTGCTAATAATCTAAACATTCTTTTATCTATCAAAC
ATGGTTTGTGGCTTACAACTTTTCCTCTGGGCTCGATAATCGCCTTTGAAAATACAGTAGACTG
AAGTGATTTATTGAAAGGTTTCATTTATATCTCTGAACTATCCATTTTTTTGTTTGAATTTCTA
AATGTAAAATTTATGTTTAAATAGGATAAAGTTGACTGTGACTTTTGTTTTCAAAAATTAGGCA
AATTAATATATAAATAATTCAAAGGGTCTTTGTTTACTTTGACAAAGAATTTTTCTCTGAATTA
AAGATGGTTTCACAGGATTGCACCAATCAGTTCCATGTAAAAT

hide sequence

Protein Sequences


Protein RefSeqs	NP_001099228	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	D3ZTX0	(Get FASTA)	NCBI Sequence Viewer
	EDM14393	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001099228 ⟸ NM_001105758
- Peptide Label:	precursor
- UniProtKB:	D3ZTX0 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MPRPRSATCWAAAAGRWSCRLLALLLLLLLPGPSGGSEITFELPDNAKQCFYEDITQGTKCTLE FQVITGGHYDVDCRLEDPDGKVLYKEMKKQYDSFTFTASKNGTYKFCFSNEFSTFTHKTVYFDF QVGEDPPLFPSENRVSALTQMESACVSIHEALKSVIDYQTHFRLREAQGRSRAEDLNTRVAYWS VGEALILLVVSIGQVFLLKSFFSDKRTTTTRVGS hide sequence

RefSeq Acc Id:

ENSRNOP00000004942 ⟸ ENSRNOT00000004942

Protein Domains

GOLD

Transcriptome

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

Promoters

RGD ID:

13700764

Promoter ID:

EPDNEW_R11288

Type:

initiation region

Name:

Tmed7_1

Description:

transmembrane p24 trafficking protein 7

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	18	40,586,217 - 40,586,277	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:727954	AgrOrtholog
Ensembl Genes	ENSRNOG00000003691	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000004942	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000004942	ENTREZGENE, UniProtKB/Swiss-Prot
InterPro	GOLD_dom	UniProtKB/Swiss-Prot
	GOLD_dom_sf	UniProtKB/Swiss-Prot
	TMED7	UniProtKB/Swiss-Prot
	TMP21-related	UniProtKB/Swiss-Prot
KEGG Report	rno:252889	UniProtKB/Swiss-Prot
NCBI Gene	252889	ENTREZGENE
PANTHER	PTHR22811	UniProtKB/Swiss-Prot
	PTHR22811:SF117	UniProtKB/Swiss-Prot
Pfam	EMP24_GP25L	UniProtKB/Swiss-Prot
PhenoGen	Tmed7	PhenoGen
PROSITE	GOLD	UniProtKB/Swiss-Prot
SMART	EMP24_GP25L	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF101576	UniProtKB/Swiss-Prot
UniProt	D3ZTX0	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-08-19	Tmed7	transmembrane p24 trafficking protein 7	Tmed7	transmembrane emp24 protein transport domain containing 7	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-05-24	Tmed7	transmembrane emp24 protein transport domain containing 7	LOC679060	similar to transmembrane emp24 protein transport domain containing 7	Data Merged	1643240	APPROVED
2006-11-20	LOC679060	similar to transmembrane emp24 protein transport domain containing 7			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-07-08	Tmed7	transmembrane emp24 protein transport domain containing 7	LOC252889	UV36Sp6 ultraviolet B radiation-activated UV36	Symbol and Name updated	1299863	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_regulation	induced by ultraviolet B radiation	634611

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD