Dmtf1 (cyclin D binding myb-like transcription factor 1)

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Gene: Dmtf1 (cyclin D binding myb-like transcription factor 1) Rattus norvegicus

Analyze

Symbol:

Dmtf1

Name:

cyclin D binding myb-like transcription factor 1

RGD ID:

70966

Description:

Predicted to have DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to localize to cytosol and nucleoplasm. Orthologous to human DMTF1 (cyclin D binding myb like transcription factor 1); INTERACTS WITH 2,4-dinitrotoluene; 3H-1,2-dithiole-3-thione; ammonium chloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

cyclin D binding myb-like transcription factor 1D-interacting myb-like protein; cyclin-D-binding Myb-like transcription factor 1

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

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	4	24,909,937 - 24,950,786 (+)	NCBI
Rnor_6.0 Ensembl	4	21,862,313 - 21,902,762 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	4	21,862,297 - 21,902,798 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	4	21,793,677 - 21,834,162 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	21,329,397 - 21,369,691 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	4	21,366,830 - 21,367,402 (+)	NCBI
Celera	4	20,407,932 - 20,448,234 (+)	NCBI		Celera
Cytogenetic Map	4	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

epilepsy (ISO)

pleomorphic xanthoastrocytoma (ISO)

visual epilepsy (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

1-nitropyrene (ISO)

2,4-dinitrotoluene (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

3H-1,2-dithiole-3-thione (EXP)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

arsane (ISO)

arsenic atom (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

Benzo[ghi]perylene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium dichloride (EXP)

carbon nanotube (ISO)

chrysene (ISO)

clofibrate (ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dibutyl phthalate (EXP)

elemental selenium (ISO)

ethanol (ISO)

gentamycin (EXP)

geraniol (ISO)

hydrogen peroxide (ISO)

indometacin (ISO)

ketamine (EXP)

ochratoxin A (ISO)

paclitaxel (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

selenium atom (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sulforaphane (ISO)

tetrachloromethane (EXP,ISO)

trichloroethene (ISO)

troglitazone (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

positive regulation of transcription by RNA polymerase II (ISO)

regulation of transcription by RNA polymerase II (IBA)

regulation of transcription, DNA-templated (IBA)

Cellular Component

chromatin (IBA)

cytosol (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA)

Molecular Function

DNA-binding transcription activator activity, RNA polymerase II-specific (ISO)

DNA-binding transcription factor activity (IBA)

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA,ISO)

transcription regulatory region sequence-specific DNA binding (IBA)

References

References - curated


1.	Bodner SM, etal., Gene 1999 Mar 18;229(1-2):223-8.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	GOA data from the GO Consortium
4.	MGD Curation, June 12, 2002
5.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	RGD automated data pipeline
7.	RGD automated import pipeline for gene-chemical interactions
8.	Walentinsson A, etal., Cancer Res 2001 Nov 15;61(22):8263-73.
9.	Walentinsson A, etal., Mamm Genome 2001 Dec;12(12):900-8.

Additional References at PubMed

PMID:12477932	PMID:19816943

Genomics

Comparative Map Data

Dmtf1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	4	24,909,937 - 24,950,786 (+)	NCBI
Rnor_6.0 Ensembl	4	21,862,313 - 21,902,762 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	4	21,862,297 - 21,902,798 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	4	21,793,677 - 21,834,162 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	21,329,397 - 21,369,691 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	4	21,366,830 - 21,367,402 (+)	NCBI
Celera	4	20,407,932 - 20,448,234 (+)	NCBI		Celera
Cytogenetic Map	4	q12	NCBI

DMTF1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	7	87,152,361 - 87,196,337 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38.p13 Ensembl	7	87,152,409 - 87,196,337 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	7	87,152,421 - 87,196,325 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	7	86,781,769 - 86,825,641 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	86,619,860 - 86,663,584 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	7	86,426,574 - 86,470,295	NCBI
Celera	7	81,486,557 - 81,530,527 (+)	NCBI
Cytogenetic Map	7	q21.12	NCBI
HuRef	7	81,392,670 - 81,436,634 (+)	NCBI		HuRef
CHM1_1	7	86,711,722 - 86,755,672 (+)	NCBI		CHM1_1
CRA_TCAGchr7v2	7	86,113,189 - 86,157,158 (+)	NCBI

Dmtf1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	9,168,868 - 9,211,821 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	5	9,168,801 - 9,211,776 (-)	Ensembl
GRCm38	5	9,118,868 - 9,161,806 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	9,118,801 - 9,161,776 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	9,118,868 - 9,161,776 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	5	9,124,807 - 9,167,724 (-)	NCBI			mm8
Celera	5	9,035,220 - 9,078,128 (-)	NCBI		Celera
Cytogenetic Map	5	A1	NCBI

Dmtf1
(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_004955621	50,457 - 95,460 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955621	50,457 - 95,460 (-)	NCBI	ChiLan1.0	ChiLan1.0

DMTF1
(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	7	92,792,107 - 92,836,607 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	92,792,934 - 92,836,607 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	7	79,135,090 - 79,178,980 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

DMTF1
(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	14	13,336,426 - 13,377,257 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	14	13,336,316 - 13,378,231 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Dmtf1
(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_004936763	1,595,291 - 1,639,928 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DMTF1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	93,416,454 - 93,463,042 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	93,416,451 - 93,463,129 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	102,896,729 - 102,941,820 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DMTF1
(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	21	61,744,438 - 61,789,032 (-)	NCBI
ChlSab1.1 Ensembl	21	61,745,619 - 61,787,044 (-)	Ensembl

Dmtf1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624739	34,594,204 - 34,635,809 (+)	NCBI

Position Markers

RH137636

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	21,875,437 - 21,875,684	NCBI	Rnor6.0
Rnor_5.0	4	21,806,801 - 21,807,048	UniSTS	Rnor5.0
RGSC_v3.4	4	21,342,329 - 21,342,576	UniSTS	RGSC3.4
Celera	4	20,420,864 - 20,421,111	UniSTS
RH 3.4 Map	4	136.6	UniSTS
Cytogenetic Map	4	q12	UniSTS
Cytogenetic Map	4	q12-q13	UniSTS

RH138123

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	21,884,619 - 21,884,834	NCBI	Rnor6.0
Rnor_5.0	4	21,815,983 - 21,816,198	UniSTS	Rnor5.0
RGSC_v3.4	4	21,351,511 - 21,351,726	UniSTS	RGSC3.4
Celera	4	20,430,046 - 20,430,261	UniSTS
Cytogenetic Map	4	q12	UniSTS
Cytogenetic Map	4	q12-q13	UniSTS

RH139646

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	21,903,031 - 21,903,212	NCBI	Rnor6.0
Rnor_5.0	4	21,834,395 - 21,834,576	UniSTS	Rnor5.0
RGSC_v3.4	4	21,369,924 - 21,370,105	UniSTS	RGSC3.4
Celera	4	20,448,467 - 20,448,648	UniSTS
RH 3.4 Map	4	144.6	UniSTS
RH 3.4 Map	4	142.2	UniSTS
Cytogenetic Map	4	q12-q13	UniSTS
Cytogenetic Map	4	q12	UniSTS

RH140676

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Cytogenetic Map	4	q12-q13	UniSTS

RH141561

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	21,877,321 - 21,877,504	NCBI	Rnor6.0
Rnor_5.0	4	21,808,685 - 21,808,868	UniSTS	Rnor5.0
RGSC_v3.4	4	21,344,213 - 21,344,396	UniSTS	RGSC3.4
Celera	4	20,422,748 - 20,422,931	UniSTS
RH 3.4 Map	4	136.8	UniSTS
Cytogenetic Map	4	q12	UniSTS
Cytogenetic Map	4	q12-q13	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
61408	Scl23	Serum cholesterol level QTL 23		0.0005	blood HDL phospholipid amount (VT:0010504)	serum high density lipoprotein phospholipid level (CMO:0001567)	4	1	25545519	Rat
724557	Plsm1	Polydactyly-luxate syndrome (PLS) morphotypes QTL 1		0.0003	forelimb integrity trait (VT:0010562)	front foot phalanges count (CMO:0001947)	4	1	25545519	Rat
61351	Bp33	Blood pressure QTL 33		0.0018	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	1	25545519	Rat
1641905	Colcr1	Colorectal carcinoma resistance QTL 1	4.3	0.0003	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	4	1	26654881	Rat
61333	Gluco16	Glucose level QTL 16	4.3	0.00001	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	1	26803291	Rat
9589046	Scfw2	Subcutaneous fat weight QTL 2	5.54	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	4	1	28352196	Rat
9589097	Slep11	Serum leptin concentration QTL 11	5.09	0.001	blood leptin amount (VT:0005667)	plasma leptin level (CMO:0000781)	4	1	28352196	Rat
9590100	Sffal4	Serum free fatty acids level QTL 4	7.36	0.05	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	4	1	28352196	Rat
8552903	Pigfal2	Plasma insulin-like growth factor 1 level QTL 2	7.3		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	4	1	28352196	Rat
1357343	Gluco4	Glucose level QTL 4		0.00002	adipocyte glucose uptake trait (VT:0004185)	adipocyte maximal glucose uptake to basal glucose uptake ratio (CMO:0000874)	4	1	29778604	Rat
1357341	Gluco5	Glucose level QTL 5	6.4		adipocyte free fatty acid secretion trait (VT:0010465)	absolute change in adipocyte free fatty acid secretion per unit volume (CMO:0001446)	4	1	29778604	Rat
738021	Hcar13	Hepatocarcinoma resistance QTL 13	4.3		liver integrity trait (VT:0010547)	liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)	4	1	31554484	Rat
634323	Hc2	Hypercalciuria QTL 2	2.15		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	4	1	42118977	Rat
619616	Bp79	Blood pressure QTL 79		0.0292	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	3043231	79575658	Rat
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	3043231	145254791	Rat
2302371	Stl22	Serum triglyceride level QTL 22	5.15		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	4	3044017	55791834	Rat
1358203	Stl19	Serum triglyceride level QTL 19	2.8	0.002	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	4	3044017	64915903	Rat
1358201	Gluco12	Glucose level QTL12	1.6		adipocyte glucose uptake trait (VT:0004185)	adipocyte maximal glucose uptake (CMO:0000870)	4	3044114	26753655	Rat
631642	Stl2	Serum triglyceride level QTL 2	3.3		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	4	3047807	55324857	Rat
631209	Bw2	Body weight QTL2	4.2		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	4	6467693	43414792	Rat
1300141	Bp178	Blood pressure QTL 178			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	6572939	37703537	Rat
631261	Tcas3	Tongue tumor susceptibility QTL 3	6.88		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	4	7342404	92484039	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	7850904	182171018	Rat
9590304	Scort17	Serum corticosterone level QTL 17	4.96	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	8052189	53052189	Rat
6478724	Anxrr35	Anxiety related response QTL 35		0.00449	defecation behavior trait (VT:0010462)	defecation measurement (CMO:0000997)	4	8052189	53052189	Rat
6478766	Anxrr47	Anxiety related response QTL 47		0.09637	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	8052189	53052189	Rat
6478769	Anxrr48	Anxiety related response QTL 48		0.02514	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	8052189	53052189	Rat
8552906	Pigfal3	Plasma insulin-like growth factor 1 level QTL 3			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	4	8052189	53052189	Rat
8694374	Bw155	Body weight QTL 155	3.39	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	4	8052189	53052189	Rat
2303585	Bw86	Body weight QTL 86	4		body mass (VT:0001259)	body weight (CMO:0000012)	4	12638974	57638974	Rat
7387227	Uae40	Urinary albumin excretion QTL 40	2.9	0.0052	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	16149941	61149941	Rat
70222	Eae2	Experimental allergic encephalomyelitis QTL 2	4.3		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	4	18222187	37685319	Rat
1354665	Stl10	Serum triglyceride level QTL 10	3.57		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	4	18222187	43414792	Rat
61412	Pia2	Pristane induced arthritis QTL 2	3.9		joint integrity trait (VT:0010548)	post-insult time to onset of experimental arthritis (CMO:0001450)	4	18222187	61039065	Rat
8552803	Bw144	Body weight QTL 144	16		body mass (VT:0001259)	change in body weight to body weight ratio (CMO:0002216)	4	19618866	31825560	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	499
Count of miRNA genes:	217
Interacting mature miRNAs:	259
Transcripts:	ENSRNOT00000007948, ENSRNOT00000044810
Prediction methods:	Microtar, Miranda, Rnahybrid, 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	40	46	30	19	30	5	5	74	35	38	11	5
Low		3	11	11		11	3	6			3		3
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053693	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017592381	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106913	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005503142	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF352169	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF352170	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF352171	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC081880	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474013	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000141	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000007948 ⟹ ENSRNOP00000007948

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	21,862,313 - 21,902,762 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000044810 ⟹ ENSRNOP00000046030

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	21,872,856 - 21,901,788 (+)	Ensembl

RefSeq Acc Id:

NM_053693 ⟹ NP_446145

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	24,910,487 - 24,950,786 (+)	NCBI
Rnor_6.0	4	21,862,313 - 21,902,798 (+)	NCBI
Rnor_5.0	4	21,793,677 - 21,834,162 (+)	NCBI
RGSC_v3.4	4	21,329,397 - 21,369,691 (+)	RGD
Celera	4	20,407,932 - 20,448,234 (+)	RGD

Sequence:

show sequence

GGCGCGGCCGTGGCTCCGTTTCCGGTGGCTGGTTGCGCTCGCTCACCCCAGCTGCAGCCACTCT
CTCCCGTGGCTGCTTCCTCCATCCTGGTATTTTTTGGAGCCTCCATCCTGGTTCTTCCAAAGTG
CCCGGACCCAAAACAGGAAAGTGTTGCAGATGCACAAGCATGGAGGAGAAACAGTCTGGATAAC
GTGAGTGATGCTGCTGGCCAAAGCACAGAGGCGTGATTCTATGGGAAGGGCTGTAGCTAATCTA
TCTGTGGTCTAGATTTGAGTATGAGCACAGTTGAAGAGGATTCTGACACAGTAACAGTAGAAAC
TGTGAATTCTGTGACGTTTACTCAGGACACAGACGGGAACCTCATTCTTCATTGCCCTCAGAAT
GACCCTGATGAAATAGACTCAGAAGACAGTACTGAACCTCCACATAAGAGGCTTTGTTTGTCCT
CCGAGGATGATCAGAGCATTGATGACTCTACACCGTGCATATCGGTTGTGGCACTCCCACTTTC
AGAAAATGATCAGAGCTTTGAGGTGACCATGACGGCAACTACAGAGGTGGCAGATGATGAACTT
TCTGAGGGAACTGTGACACAAATTCAGATTTTACAGAATGATCAACTAGATGAGATGTCTCCAT
TGGGTACTGAGGAAGTTTCTGCAGTTAGCCAAGCATGGTTTACAACTAAAGAAGACAAGGATTC
TCTCACTAACAAAGGACATAAATGGAAGCAAGGGATGTGGTCCAAGGAAGAAATTGATATTTTG
ATGAACAACATTGAGCGCTATCTGAAGGCTCGCGGAATAAAAGATGCTACAGAAATCATCTTTG
AGATGTCAAAAGACGAAAGAAAAGATTTCTACAGGACTATTGCGTGGGGGCTGAACCGGCCTTT
GTTTGCAGTTTATAGAAGAGTGCTGCGCATGTATGATGACAGGAACCATGTGGGAAAATACACT
CCTGAAGAAATTGAGAAGCTCAAGGAGCTCCGGATAAAGCATGGCAATGACTGGGCAACAATAG
GGGCGGCCCTGGGAAGAAGCGCCTCTTCTGTCAAAGACCGCTGCCGGCTGATGAAGGACACCTG
CAACACAGGGAAATGGACAGAAGAAGAAGAAAAGAGACTTGCAGAGGTAGTTCATGAATTAACA
AGCACGGAGCCAGGTGACATCGTCACACAGGGTGTGTCTTGGGCAGCTGTAGCGGAAAGAGTGG
GTACCCGCTCAGAAAAGCAATGCCGTTCTAAATGGCTCAACTACCTGAACTGGAAACAGAGTGG
GGGAACTGAGTGGACCAAGGAAGATGAAATCAATCTCATCCTCAGGATAGCTGAGCTTGATGTA
GCTGATGAAAATGACATAAACTGGGATCTTCTAGCTGAGGGATGGAGCAGTGTTCGTTCACCAC
AGTGGCTTCGAAGTAAATGGTGGACCATCAAAAGGCAAATCGCAAACCATAAGGATGTTTCGTT
TCCTGCTTCAACAGACTCCCCTGCTGCTTCTGTTGACTCAGAAACAATAACACTAAACAGTGGA
ACACTGCAAACATTTGAGATTCTTCCATCTTTCCATTTACAGCCTACTGGTACTCCAGGCACCT
ACCTTCTTCAAACAAGCTCAAGTCAAGGCCTTCCCCTAACACTGACCACAAGTCCCACAGTAAC
CCTGGCAGCTGCTGCTCCTGCTTCTCCTGAACAGATCATTGTTCATGCTTTATCCCCGGAACAT
TTGTTGAACACAAGTGACAATGTCACAGTACAGTGTCACACACCAAGAGTCATCATTCAAACTG
TTGCTACAGAGGACATCACTTCTTCAATATCCCAAGCAGAACTGACAGCTGATAGTGATCTTCA
TTCATCTGATTTTCCTGAGCCTCCAGATGCACTAGAAGCAGACACTTTCCCAGATGAAATTCCT
CGGCCTAAGATGACTATACAACCATCATTTAATAATGCTCATGTGTCTAAATACAGTGACCAAA
ATAGCACAGAACTGATGAATAGTGTCATGGTCAGAACAGAGGAAGAAATTGCTGACACTGACCT
TAAGCAAGAACCACCTTCCGACTTAGCCAGTGCTTATGTTACTGAGGATTTAGAGTCTCCTACC
ATAGTACACCAAGTTCATCAGACAATTGATGATGAGACAATACTTATCGTTCCTTCACCACATG
GCTTTATCCAGGCATCTGATGGTATCGACGCTGAGTCTGTCTTGCCTTTGACAACACTAACAGA
TCCCATATTTCAACATCATCAGGAAGAATCGAATATAATTGGATCATCTTTGGGCAGTCCTGTT
TCTGAGGACTCAAAGGATGTTGAGGACTTGGTAAACTGTCACTAGATTGTTAGAAGCAGGTACT
TCAGGAAGCCACATTGTTGACTACAGACTACATTGTCTCCAAAGAAAGGAGCCATCCCAAGAGT
CTTGGTCTGCCATTCCTCTGGCCTGTGCATAGCTGCTGTGCTTAAGCCATGCACATCGTTGCTG
CTGTTACCTTTTACCTCCTTTTAAGTAGATCATCTGAGGTCCAATTTTATAAGTGTGTTATGAT
GGAGGACAGGAAGTGTGAGCTGCCCAGACTTGTTAAGTTTTGTGTCAAGAGGGAGTTGCAGTCA
GTGCAGCTACTTCTGTCACCAAAGCTTAACTCCTCTGGTTTACATCTAAACAGTAATACCCATC
TCTGCGGTGGACACTGAGCTCTGCCCAGACTCAGGCTGGTCTGCTTACAATTCAGGTTATATTA
GCAACAAGGTCCAGCTCACCTTAGCAGTGACTTTCAGAAAGACTAACTTAGGAGTTTATGACAT
GACCAGGTCCAAGATCATGGGAGGTGGCTGTGATGGTTAACCCATTGCTGGCAGTGGGAGCTGA
CTGAGGCAGGGTAAAGGACGAAGCAGAGAGTCAAGAAAATTCACTACAGGTCTTTGGTTTTTAA
CTTTTAAAGGGAATGTGGGTAAAGTGGTAACACAATGCACTGGTAACCAAGCAGTTATCACCCT
CATCAGAAACCAGTCCTTAGTTTACAGTTAGCACTTTGAAGTGAGATTAAATGAGGGGAGGTAA
TATTGCCTGTATTTGATAACCATGACTTTTTTTTATTACACGTTTTACTATATAAATTGCCCAG
AAGATAGTTGAGGGGTATTAGAGTATGCTGTTCACTTAGTGCATTACCTGGTGGGGGTACAGTA
TAGCTTCTCCCTCAGGCACTTTTAAAAAACAAAGTTTGCTTCTGTATCAAAAGAAAACAAATCA
AGAGTCATTCCTAAGGTAAAGCCAAAAGTAGCCTCTAGGGCTTTAATGATATGATCCTTATAGA
AAAGTAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_017592381 ⟹ XP_017447870

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	24,909,937 - 24,950,786 (+)	NCBI
Rnor_6.0	4	21,862,297 - 21,902,798 (+)	NCBI

Sequence:

show sequence

GAGAGGGCGGGGGCGGGGCGCGGCCGTGGCTCCGTTTCCGGTGGCTGGTTGCGCTCGCTCACCC
CAGCTGCAGCCACTCTCTCCCGTGGCTGCTTCCTCCATCCTGGTATTTTTTGGAGCCTCCATCC
TGGTTCTTCCAAAGTGCCCGGACCCAAAACAGGAAAGTGTTGCAGATGCACAAGCATGGAGGAG
AAACAGTCTGGATAACGTGAGTGATGCTGCTGGCCAAAGCACAGAGGCGTGATTCTATGGGAAG
GGCTGTAGCTAATCTATCTGTGGTCTAGATTTGAGTATGAGCACAGTTGAAGAGGATTCTGACA
CAGTAACAGTAGAAACTGTGAATTCTGTGACGTTTACTCAGGACACAGACGGGAACCTCATTCT
TCATTGCCCTCAGAATGACCCTGATGAAATAGACTCAGAAGACAGTACTGAACCTCCACATAAG
AGGCTTTGTTTGTCCTCCGAGGATGATCAGAGCATTGATGACTCTACACCGTGCATATCGGTTG
TGGCACTCCCACTTTCAGAAAATGATCAGAGCTTTGAGGTGACCATGACGGCAACTACAGAGGT
GGCAGATGATGAACTTTCTGAGGGAACTGTGACACAAATTCAGATTTTACAGAATGATCAACTA
GATGAGATGTCTCCATTGGGTACTGAGGAAGTTTCTGCAGTTAGCCAAGCATGGTTTACAACTA
AAGAAGACAAGGATTCTCTCACTAACAAAGGACATAAATGGAAGCAAGGGATGTGGTCCAAGGA
AGAAATTGATATTTTGATGAACAACATTGAGCGCTATCTGAAGGCTCGCGGAATAAAAGATGCT
ACAGAAATCATCTTTGAGATGTCAAAAGACGAAAGAAAAGATTTCTACAGGACTATTGCGTGGG
GGCTGAACCGGCCTTTGTTTGCAGTTTATAGAAGAGTGCTGCGCATGTATGATGACAGGAACCA
TGTGGGAAAATACACTCCTGAAGAAATTGAGAAGCTCAAGGAGCTCCGGATAAAGCATGGCAAT
GACTGGGCAACAATAGGGGCGGCCCTGGGAAGAAGCGCCTCTTCTGTCAAAGACCGCTGCCGGC
TGATGAAGGACACCTGCAACACAGGGAAATGGACAGAAGAAGAAGAAAAGAGACTTGCAGAGGT
AGTTCATGAATTAACAAGCACGGAGCCAGGTGACATCGTCACACAGGGTGTGTCTTGGGCAGCT
GTAGCGGAAAGAGTGGGTACCCGCTCAGAAAAGCAATGCCGTTCTAAATGGCTCAACTACCTGA
ACTGGAAACAGAGTGGGGGAACTGAGTGGACCAAGGAAGATGAAATCAATCTCATCCTCAGGAT
AGCTGAGCTTGATGTAGCTGATGAAAATGACATAAACTGGGATCTTCTAGCTGAGGGATGGAGC
AGTGTTCGTTCACCACAGTGGCTTCGAAGTAAATGGTGGACCATCAAAAGGCAAATCGCAAACC
ATAAGGATGTTTCGTTTCCTGTCTTAATAAAAGGTCTTAAACAGTTACATGAGAACCAAAAAAA
CAACCCAGTGCTTTTGGAGAATAAATCAGGATCTGGCGTTCCAAACAGTAATTGCAATTCCAGT
GTACAGCATGTTCAGATCAGAGTCGCCCGCTTGGAAGATAATACAGCCATCTCTCCAAGCCCCA
TGGCAGCGTTGCAGATTCCCGTCCAGATCACCCACGTCTCTTCAACAGACTCCCCTGCTGCTTC
TGTTGACTCAGAAACAATAACACTAAACAGTGGAACACTGCAAACATTTGAGATTCTTCCATCT
TTCCATTTACAGCCTACTGGTACTCCAGGCACCTACCTTCTTCAAACAAGCTCAAGTCAAGGCC
TTCCCCTAACACTGACCACAAGTCCCACAGTAACCCTGGCAGCTGCTGCTCCTGCTTCTCCTGA
ACAGATCATTGTTCATGCTTTATCCCCGGAACATTTGTTGAACACAAGTGACAATGTCACAGTA
CAGTGTCACACACCAAGAGTCATCATTCAAACTGTTGCTACAGAGGACATCACTTCTTCAATAT
CCCAAGCAGAACTGACAGCTGATAGTGATCTTCATTCATCTGATTTTCCTGAGCCTCCAGATGC
ACTAGAAGCAGACACTTTCCCAGATGAAATTCCTCGGCCTAAGATGACTATACAACCATCATTT
AATAATGCTCATGTGTCTAAATACAGTGACCAAAATAGCACAGAACTGATGAATAGTGTCATGG
TCAGAACAGAGGAAGAAATTGCTGACACTGACCTTAAGCAAGAACCACCTTCCGACTTAGCCAG
TGCTTATGTTACTGAGGATTTAGAGTCTCCTACCATAGTACACCAAGTTCATCAGACAATTGAT
GATGAGACAATACTTATCGTTCCTTCACCACATGGCTTTATCCAGGCATCTGATGGTATCGACG
CTGAGTCTGTCTTGCCTTTGACAACACTAACAGATCCCATATTTCAACATCATCAGGAAGAATC
GAATATAATTGGATCATCTTTGGGCAGTCCTGTTTCTGAGGACTCAAAGGATGTTGAGGACTTG
GTAAACTGTCACTAGATTGTTAGAAGCAGGTACTTCAGGAAGCCACATTGTTGACTACAGACTA
CATTGTCTCCAAAGAAAGGAGCCATCCCAAGAGTCTTGGTCTGCCATTCCTCTGGCCTGTGCAT
AGCTGCTGTGCTTAAGCCATGCACATCGTTGCTGCTGTTACCTTTTACCTCCTTTTAAGTAGAT
CATCTGAGGTCCAATTTTATAAGTGTGTTATGATGGAGGACAGGAAGTGTGAGCTGCCCAGACT
TGTTAAGTTTTGTGTCAAGAGGGAGTTGCAGTCAGTGCAGCTACTTCTGTCACCAAAGCTTAAC
TCCTCTGGTTTACATCTAAACAGTAATACCCATCTCTGCGGTGGACACTGAGCTCTGCCCAGAC
TCAGGCTGGTCTGCTTACAATTCAGGTTATATTAGCAACAAGGTCCAGCTCACCTTAGCAGTGA
CTTTCAGAAAGACTAACTTAGGAGTTTATGACATGACCAGGTCCAAGATCATGGGAGGTGGCTG
TGATGGTTAACCCATTGCTGGCAGTGGGAGCTGACTGAGGCAGGGTAAAGGACGAAGCAGAGAG
TCAAGAAAATTCACTACAGGTCTTTGGTTTTTAACTTTTAAAGGGAATGTGGGTAAAGTGGTAA
CACAATGCACTGGTAACCAAGCAGTTATCACCCTCATCAGAAACCAGTCCTTAGTTTACAGTTA
GCACTTTGAAGTGAGATTAAATGAGGGGAGGTAATATTGCCTGTATTTGATAACCATGACTTTT
TTTTATTACACGTTTTACTATATAAATTGCCCAGAAGATAGTTGAGGGGTATTAGAGTATGCTG
TTCACTTAGTGCATTACCTGGTGGGGGTACAGTATAGCTTCTCCCTCAGGCACTTTTAAAAAAC
AAAGTTTGCTTCTGTATCAAAAGAAAACAAATCAAGAGTCATTCCTAAGGTAAAGCCAAAAGTA
GCCTCTAGGGCTTTAATGATATGATCCTTATAGAAAAGTAAAAAAAAAAAAAAAAAAAAAAAAA
A

hide sequence

RefSeq Acc Id:

XM_039106913 ⟹ XP_038962841

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	24,909,937 - 24,943,250 (+)	NCBI

RefSeq Acc Id:

XR_005503142

RefSeq Status:

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	24,909,937 - 24,950,786 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_446145	(Get FASTA)	NCBI Sequence Viewer
	XP_017447870	(Get FASTA)	NCBI Sequence Viewer
	XP_038962841	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH81880	(Get FASTA)	NCBI Sequence Viewer
	AAK32705	(Get FASTA)	NCBI Sequence Viewer
	AAK32706	(Get FASTA)	NCBI Sequence Viewer
	AAK32707	(Get FASTA)	NCBI Sequence Viewer
	EDL84309	(Get FASTA)	NCBI Sequence Viewer
	Q66HG1	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_446145 ⟸ NM_053693

- UniProtKB:

Q66HG1 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MSTVEEDSDTVTVETVNSVTFTQDTDGNLILHCPQNDPDEIDSEDSTEPPHKRLCLSSEDDQSI
DDSTPCISVVALPLSENDQSFEVTMTATTEVADDELSEGTVTQIQILQNDQLDEMSPLGTEEVS
AVSQAWFTTKEDKDSLTNKGHKWKQGMWSKEEIDILMNNIERYLKARGIKDATEIIFEMSKDER
KDFYRTIAWGLNRPLFAVYRRVLRMYDDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAALGRS
ASSVKDRCRLMKDTCNTGKWTEEEEKRLAEVVHELTSTEPGDIVTQGVSWAAVAERVGTRSEKQ
CRSKWLNYLNWKQSGGTEWTKEDEINLILRIAELDVADENDINWDLLAEGWSSVRSPQWLRSKW
WTIKRQIANHKDVSFPASTDSPAASVDSETITLNSGTLQTFEILPSFHLQPTGTPGTYLLQTSS
SQGLPLTLTTSPTVTLAAAAPASPEQIIVHALSPEHLLNTSDNVTVQCHTPRVIIQTVATEDIT
SSISQAELTADSDLHSSDFPEPPDALEADTFPDEIPRPKMTIQPSFNNAHVSKYSDQNSTELMN
SVMVRTEEEIADTDLKQEPPSDLASAYVTEDLESPTIVHQVHQTIDDETILIVPSPHGFIQASD
GIDAESVLPLTTLTDPIFQHHQEESNIIGSSLGSPVSEDSKDVEDLVNCH

hide sequence

RefSeq Acc Id:	XP_017447870 ⟸ XM_017592381
- Peptide Label:	isoform X1
- UniProtKB:	Q66HG1 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MSTVEEDSDTVTVETVNSVTFTQDTDGNLILHCPQNDPDEIDSEDSTEPPHKRLCLSSEDDQSI DDSTPCISVVALPLSENDQSFEVTMTATTEVADDELSEGTVTQIQILQNDQLDEMSPLGTEEVS AVSQAWFTTKEDKDSLTNKGHKWKQGMWSKEEIDILMNNIERYLKARGIKDATEIIFEMSKDER KDFYRTIAWGLNRPLFAVYRRVLRMYDDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAALGRS ASSVKDRCRLMKDTCNTGKWTEEEEKRLAEVVHELTSTEPGDIVTQGVSWAAVAERVGTRSEKQ CRSKWLNYLNWKQSGGTEWTKEDEINLILRIAELDVADENDINWDLLAEGWSSVRSPQWLRSKW WTIKRQIANHKDVSFPVLIKGLKQLHENQKNNPVLLENKSGSGVPNSNCNSSVQHVQIRVARLE DNTAISPSPMAALQIPVQITHVSSTDSPAASVDSETITLNSGTLQTFEILPSFHLQPTGTPGTY LLQTSSSQGLPLTLTTSPTVTLAAAAPASPEQIIVHALSPEHLLNTSDNVTVQCHTPRVIIQTV ATEDITSSISQAELTADSDLHSSDFPEPPDALEADTFPDEIPRPKMTIQPSFNNAHVSKYSDQN STELMNSVMVRTEEEIADTDLKQEPPSDLASAYVTEDLESPTIVHQVHQTIDDETILIVPSPHG FIQASDGIDAESVLPLTTLTDPIFQHHQEESNIIGSSLGSPVSEDSKDVEDLVNCH hide sequence

RefSeq Acc Id:

ENSRNOP00000046030 ⟸ ENSRNOT00000044810

RefSeq Acc Id:

ENSRNOP00000007948 ⟸ ENSRNOT00000007948

RefSeq Acc Id:	XP_038962841 ⟸ XM_039106913
- Peptide Label:	isoform X2

Protein Domains

HTH myb-type Myb-like

Transcriptome

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

Promoters

RGD ID:

13692824

Promoter ID:

EPDNEW_R3349

Type:

initiation region

Name:

Dmtf1_1

Description:

cyclin D binding myb-like transcription factor 1

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	4	21,862,357 - 21,862,417	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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

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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

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
4	21820231	21820232	C	T	snv	IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
4	21825270	21825271	C	T	snv	IS-Tlk/Kyo (KyushuU)

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
4	21371264	21371265	C	T	snv	DA/BklArbNsi (ICAHN)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:70966	AgrOrtholog
Ensembl Genes	ENSRNOG00000005908	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000007948	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000046030	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000007948	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000044810	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7108159	IMAGE-MGC_LOAD
InterPro	Homeobox-like_sf	UniProtKB/Swiss-Prot
	Myb-like_dom	UniProtKB/Swiss-Prot
	Myb_dom	UniProtKB/Swiss-Prot
	SANT/Myb	UniProtKB/Swiss-Prot
KEGG Report	rno:114485	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:93746	IMAGE-MGC_LOAD
NCBI Gene	114485	ENTREZGENE
Pfam	Myb_DNA-binding	UniProtKB/Swiss-Prot
PhenoGen	Dmtf1	PhenoGen
PROSITE	HTH_MYB	UniProtKB/Swiss-Prot
	MYB_LIKE	UniProtKB/Swiss-Prot
SMART	SANT	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF46689	UniProtKB/Swiss-Prot
UniProt	DMTF1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary	Q99MC8	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2002-07-09	Dmtf1	cyclin D binding myb-like transcription factor 1			Symbol and Name updated to reflect Human and Mouse nomenclature	70877	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_disease	upregulated in uterine tumors	70348
gene_disease	upregulated in uterine tumors	70557
gene_expression	expressed in uterus	70348
gene_expression	expressed in uterus	70557
gene_mapping	maps to a region of chromosome 4 which is commonly amplified in endometrial adenocarcinomas in BDII/Han rats	70557

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