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Gene: Trim42 (tripartite motif-containing 42) Rattus norvegicus

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Symbol:

Trim42

Name:

tripartite motif-containing 42

RGD ID:

1359699

Description:

Predicted to enable zinc ion binding activity. Orthologous to human TRIM42 (tripartite motif containing 42); INTERACTS WITH 2,6-dinitrotoluene; 6-propyl-2-thiouracil; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC301106; similar to RIKEN cDNA 4930486B16; tripartite motif-containing 42-like; tripartite motif-containing protein 42

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	106,781,847 - 106,802,764 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	8	106,781,851 - 106,802,764 (-)	Ensembl				GRCr8
mRatBN7.2	8	97,902,349 - 97,923,268 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	97,902,353 - 97,923,268 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	8	103,569,393 - 103,590,260 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	101,768,650 - 101,789,519 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	99,607,578 - 99,628,445 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	105,205,041 - 105,226,541 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	105,204,993 - 105,226,588 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	8	104,651,862 - 104,672,890 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
Celera	8	97,337,231 - 97,358,211 (-)	NCBI		Celera
Cytogenetic Map	8	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

2,6-dinitrotoluene (EXP)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

benzo[a]pyrene (ISO)

beta-hexachlorocyclohexane (ISO)

bisphenol A (EXP)

CGP 52608 (ISO)

folic acid (ISO)

indinavir (ISO)

lamivudine (ISO)

lead diacetate (ISO)

perfluorohexanesulfonic acid (ISO)

perfluorononanoic acid (ISO)

perfluorooctanoic acid (ISO)

saquinavir (ISO)

titanium dioxide (ISO)

zidovudine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Molecular Function

metal ion binding (IEA)

protein binding (ISO)

zinc ion binding (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	The tripartite motif family identifies cell compartments.	Reymond A, etal., EMBO J 2001 May 1;20(9):2140-51.
4.	GOA pipeline	RGD automated data pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data

Trim42
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	8	106,781,847 - 106,802,764 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	8	106,781,851 - 106,802,764 (-)	Ensembl				GRCr8
mRatBN7.2	8	97,902,349 - 97,923,268 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	8	97,902,353 - 97,923,268 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	8	103,569,393 - 103,590,260 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	8	101,768,650 - 101,789,519 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	8	99,607,578 - 99,628,445 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	8	105,205,041 - 105,226,541 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	8	105,204,993 - 105,226,588 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	8	104,651,862 - 104,672,890 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
Celera	8	97,337,231 - 97,358,211 (-)	NCBI		Celera
Cytogenetic Map	8	q31	NCBI

TRIM42
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	140,678,064 - 140,701,150 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	140,678,064 - 140,701,150 (+)	Ensembl			hg38	GRCh38
GRCh37	3	140,396,906 - 140,419,992 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	141,879,571 - 141,902,681 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	3	141,879,578 - 141,902,689	NCBI
Celera	3	138,820,504 - 138,843,650 (+)	NCBI		Celera
Cytogenetic Map	3	q23	NCBI
HuRef	3	137,770,829 - 137,793,927 (+)	NCBI		HuRef
CHM1_1	3	140,360,480 - 140,383,594 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	3	143,425,371 - 143,448,461 (+)	NCBI		T2T-CHM13v2.0

Trim42
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	97,231,615 - 97,252,011 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	9	97,231,615 - 97,252,011 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	9	97,349,562 - 97,369,958 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	97,349,562 - 97,369,958 (-)	Ensembl			mm10	GRCm38
MGSCv37	9	97,249,981 - 97,270,377 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	9	97,158,918 - 97,179,310 (-)	NCBI		MGSCv36	mm8
Celera	9	96,903,472 - 96,923,707 (-)	NCBI		Celera
Cytogenetic Map	9	E3.3	NCBI
cM Map	9	51.06	NCBI

Trim42
(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_004955508	4,959,416 - 4,984,186 (-)	Ensembl
ChiLan1.0	NW_004955508	4,959,495 - 4,984,166 (-)	NCBI	ChiLan1.0	ChiLan1.0

TRIM42
(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	138,590,714 - 138,613,963 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	138,595,444 - 138,618,693 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	137,713,992 - 137,737,130 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	145,312,284 - 145,335,422 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	145,312,284 - 145,335,422 (+)	Ensembl			panPan2	panpan1.1

TRIM42
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	23	36,712,142 - 36,761,359 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	23	36,712,334 - 36,761,059 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	23	36,705,910 - 36,755,237 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	23	37,242,990 - 37,292,183 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	23	37,242,994 - 37,292,209 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	23	36,924,325 - 36,973,630 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	23	36,998,578 - 37,047,771 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	23	37,241,084 - 37,290,644 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Trim42
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	75,916,378 - 75,939,765 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936540	2,656,256 - 2,679,541 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936540	2,656,256 - 2,679,541 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TRIM42
(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	81,539,067 - 81,565,317 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	13	81,537,589 - 81,567,393 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	89,381,583 - 89,429,877 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TRIM42
(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	15	49,859,731 - 49,883,086 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	15	49,869,281 - 49,882,176 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666041	22,813,765 - 22,837,201 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Trim42
(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	17,299,728 - 17,338,835 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624730	17,299,792 - 17,330,817 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Trim42
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	8	88,748,174 - 88,768,672 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Trim42
114 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	20
Count of miRNA genes:	17
Interacting mature miRNAs:	19
Transcripts:	ENSRNOT00000071936
Prediction methods:	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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300177	Cm2	Cardiac mass QTL 2	3.65		heart mass (VT:0007028)	heart weight (CMO:0000017)	8	63141536	109261840	Rat
1549909	Stresp11	Stress response QTL 11	6.83	0.0019	stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	8	82352698	127352698	Rat
12879878	Bw183	Body weight QTL 183		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	8	62848139	107848139	Rat
12879879	Cm99	Cardiac mass QTL 99		0.001	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	62848139	107848139	Rat
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	49849908	118871671	Rat
9590292	Uminl3	Urine mineral level QTL 3	3.62	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	8	80768445	125768445	Rat
1331804	Cm30	Cardiac mass QTL 30	3.77443		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	8	62970527	107970527	Rat
12879880	Cm100	Cardiac mass QTL 100		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	8	62848139	107848139	Rat
12879881	Cm101	Cardiac mass QTL 101		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	8	62848139	107848139	Rat
12879882	Am8	Aortic mass QTL 8		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	8	62848139	107848139	Rat
12879883	Kidm65	Kidney mass QTL 65		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	62848139	107848139	Rat
738011	Anxrr9	Anxiety related response QTL 9	6.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	8	102413464	132782436	Rat
71120	Niddm21	Non-insulin dependent diabetes mellitus QTL 21	3.73		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	8	66992095	111992095	Rat
8693654	Alc32	Alcohol consumption QTL 32	2	0.755	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	8	97492344	116428905	Rat
634332	Pia18	Pristane induced arthritis QTL 18	4		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	84192326	132782436	Rat
1300171	Bp184	Blood pressure QTL 184	3.66		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	8	79394435	132782436	Rat
2313400	Anxrr25	Anxiety related response QTL 25			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	8	98145073	122898010	Rat
2303171	Bp331	Blood pressure QTL 331	5.57	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	105462581	132782436	Rat
631210	Bw3	Body weight QTL3	5.9		mesenteric fat pad mass (VT:0010427)	mesenteric fat pad weight to body weight ratio (CMO:0000654)	8	61019838	121662124	Rat
2293697	Bmd39	Bone mineral density QTL 39			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	8	62848139	107848139	Rat
8662823	Vetf5	Vascular elastic tissue fragility QTL 5	1.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	8	63404444	108404444	Rat
1358896	Bp262	Blood pressure QTL 262	2.89		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	35464071	107982864	Rat
1331837	Bw23	Body weight QTL 23	4.19	0.00007	body mass (VT:0001259)	body weight (CMO:0000012)	8	55428416	107963099	Rat
1331838	Niddm61	Non-insulin dependent diabetes mellitus QTL 61	3.53	0.0004	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	62963099	107963099	Rat
8694446	Bw170	Body weight QTL 170	12.07	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	8	80768445	125768445	Rat
631650	Stl6	Serum triglyceride level QTL 6	4	0.0019	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	8	70041301	121080908	Rat
1331769	Rf39	Renal function QTL 39	3.871		urine output (VT:0003620)	timed urine volume (CMO:0000260)	8	50763951	107970527	Rat
1581557	Eae16	Experimental allergic encephalomyelitis QTL 16	3.8		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	8	68690349	119799881	Rat
10450865	Bw175	Body weight QTL 175	4.1		total fat pad mass (VT:0015008)	adipose tissue molecular composition measurement (CMO:0000484)	8	84192326	129192326	Rat
1358907	Cm40	Cardiac mass QTL 40	1.89		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	35464071	107982864	Rat
724539	Cm19	Cardiac mass QTL 19	2.6		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	8	103375781	129871912	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	55428333	127966348	Rat
2316950	Scl66	Serum cholesterol level QTL 66	4.1		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	39106363	114525825	Rat
2300181	Bmd55	Bone mineral density QTL 55	5.7	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	85348065	130348065	Rat
10402857	Bp380	Blood pressure QTL 380		0.95	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	62848139	107848139	Rat
1358892	Kidm26	Kidney mass QTL 26	3.69		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	35464071	107982864	Rat
631664	Hcar3	Hepatocarcinoma resistance QTL 3	2.9	0.0005	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	8	62982864	107982864	Rat
2301402	Bp316	Blood pressure QTL 316		0.005	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	62848139	107848139	Rat
8694200	Abfw4	Abdominal fat weight QTL 4	9.07	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	8	80768445	125768445	Rat
8694392	Bw161	Body weight QTL 161	8.06	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	8	80768445	125768445	Rat
61437	Cia6	Collagen induced arthritis QTL 6			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	8	91340911	131690273	Rat

Expression

RNA-SEQ Expression

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

Download All Expressed Objects for this Gene

appendage	ectoderm	endocrine system	endoderm	exocrine system	hepatobiliary system	mesenchyme	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
2	7	4	3	2	2	7	7	3	27	1	2	2

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001013955	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC087151	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000071936 ⟹ ENSRNOP00000066659

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	8	106,781,851 - 106,802,764 (-)	Ensembl
mRatBN7.2 Ensembl	8	97,902,353 - 97,923,268 (-)	Ensembl
Rnor_6.0 Ensembl	8	105,204,993 - 105,226,588 (-)	Ensembl

RefSeq Acc Id:

NM_001013955 ⟹ NP_001013977

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	8	106,781,847 - 106,802,764 (-)	NCBI
mRatBN7.2	8	97,902,349 - 97,923,268 (-)	NCBI
Rnor_6.0	8	105,205,041 - 105,226,541 (-)	NCBI
Rnor_5.0	8	104,651,862 - 104,672,890 (-)	NCBI
Celera	8	97,337,231 - 97,358,211 (-)	NCBI

Sequence:

show sequence

ACCTGGCCAGCTTCCTGCCACAACTCCCAAACTGCCAGCCTCACCAGAGTGGGCAAGAGTCCCG
AAGGGAGAGAAGTGATCTCAGGAATCCGGTAGTGGACGCTGTCAAGACTCCAGAGGCCTTGTAC
CAGGGATCTAAGAGCCATGGACACAGCTATGTGTGTCTGTTCTCCATGCTGCACCTGGCAGAGA
TGCTGCCCCCGGCTGTTCTCCTGTTTATGCTGCAAGTTCATCTTCACCTCGGAGCGGAACTGCA
CCTGCTTCCCCTGCCCCTACAAGGATGAACGGAACTGCCAGTTCTGCCACTGCACCTGCGCGGA
GAACCCCAATTGCCATTGGTGCTGCTGCTCCTGGGCCAATGACCCCAACTGTAAGTGCTGCTGC
ACAGCCAGCACCAATCTGAAGTGCTACTACTATGAGAGCCGCTGCTGCCGCAATGTCACCGTCA
CATTTAGAAAGGGTCGCCTTCGAAGCATCCGCACCTCCTCAAAGACCGCCCTCCGCGTGGGGAG
CAGCGACACTCAGCTTGATGAGCCCAAGACCATGCCTGCCAGCAGCCACCTGGTGAACCACCTC
ACCTGCCCCATGTGCAACCGGCTGCGCCTGCACTCCTTCATGCTGCCCTGCAACCACAGCCTGT
GCGAGAAGTGCCTGAGGCAACTGCAAAAACACGCTGAGGTCACTGAGAATTTCTTCATCCTCAT
CTGCCCCATGTGTAACCGCTCGCACTGCATGCCCTACAGCCACCAGATGCACCTGCCAGAAAAC
TACCTGCGCGGGCGCCTCACCAAACGCTACATGCAGCAGCATGGCTACCTCAAGTGGCGCTTCG
ACCGGTCCTCGGGACCCATCCTCTGCCAAGTGTGCCGCACCCGGCGCATTGCCTACAAGCGTTG
TGTTACCTGTCGCCTCAACCTGTGCAATGACTGTCTCAAGGCCTTCCACTCGGATGTGGCCATG
CAGGATCACGTCTTCGTGGACACCAGCGCCGAGGATCAGGATGAGAAGATTTGCATCCACCATC
CATCCAGCCGCATCAACGAGTACTGTCGCAGCGACAACCAGCTACTCTGCGCCTTCTGCAAGAT
CGCTTTCCACAATGGCCATGACACGGTCAGCCTCATAGACGCCTGCTCCGAGAGGTCTGCAGCC
CTCTTCAGCGCCATCGCCAAGTTCAAAGCAGTCCGATATGAGATTGACAATGACCTGATGGAAT
TCAACATTCTGAAGAGTAGCTTCAAAGCTGACAAGGAAGCAAAGCGGAAGGAGGTCCGGAATGG
ATTCCTCAAACTGCGAGCCATCCTTCAAGAGAAAGAGAAGATCATCATGGAACAGATCGAGAAC
CTAGAAGTGTCCAGGCAGAAAGAAATTGAGAAATATGTATACATCACAACCATGAAAGTGAACG
AAATGGATGGTCTGATTGCCTATTCCAAGGAAGCCCTGAAGGAAACAGGCCAGGTGGCGTTCCT
GCAGTCTGCCAAGATCCTGGTGGACCAGATTGAGGAGGGCATCCAGAATACCTTCAGGCCTGAC
CCTCAGCTGCGGCTTCACTCCCTACACTGTATTCCCTTGGACTTTGCAGAACTCTCCAGTGCCA
TCCACGAGCTTTTTCCCACAGGACCCAAAAAGACTTGCTCTTCAGGGGACTCACTCCCTTCCCA
GTATCCTGTCCACTCGGAAATGATGATCGCCAGGAAGGTCACATTCAGCACCCACAGCTTCGGC
AACCAGCAGATATACCAGCGGAGCTCTTCCTTGATATCCTTCAACACCGCCAACGACAAGGGCA
AGGCGGGTCTAGAGAACTATGGGAGAGCCCAGTCTGCCGCACCTGCCAAAACAACTGATGGCCT
TTATACTTACTGGAGTGCCACAGGGGAAACCCAGCCTCCGCAGAGTAGCAACAGCTTCCACAAC
TGGTATTCTTTCAACGACACCTCTGTGAGGACCCCAGGCCCAATTGTCATCTACCAGACTCTGG
TATACCCAAGAGCGGCCAAGGTTTACTGGACGTGCCCAACAGAAGATGTGGACTCTTTTGAGAT
GGAATTCTATGAGCTCATCACCACCCCTCCTAATAATGTTCGCACAGAGCTCTGTGGACAAATT
CGAGACATCATGCAGCAGAACCTGGAGCTGCACAACCTGACCCCCAACACCGAGTATTTGTTTA
AGGTTAGAGCCATCAATGAAAATGGTCCCGGGCAGTGGAGTGACATCTGCAAGGTGGTAACACC
AGATGGGCGTGGGAAGAACCGAGCTAAGTGGGGACTGCTGAAGAATATCCAGTCTGCCCTCCAG
AAGCGCTTCTGAGCCTTGGAGTACCCCTCAGAACTCTACTGCTCATAGAGATACCTATATGTAT
ATGTATGTATTTTTCTCACCACATTCTTCAAGGAGGTTGTAGATGGACGTTTCCAGTACCTCTG
GGTTTTCCAAAAGGAGTCTCCTAAAAGCCAATAAAAGGAAATGTCTGACATCATAAAAAAAAAA
AAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001013977	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH87151	(Get FASTA)	NCBI Sequence Viewer
	EDL77473	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000066659
	ENSRNOP00000066659.1

RefSeq Acc Id:

NP_001013977 ⟸ NM_001013955

- UniProtKB:

Q5PQK3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MDTAMCVCSPCCTWQRCCPRLFSCLCCKFIFTSERNCTCFPCPYKDERNCQFCHCTCAENPNCH
WCCCSWANDPNCKCCCTASTNLKCYYYESRCCRNVTVTFRKGRLRSIRTSSKTALRVGSSDTQL
DEPKTMPASSHLVNHLTCPMCNRLRLHSFMLPCNHSLCEKCLRQLQKHAEVTENFFILICPMCN
RSHCMPYSHQMHLPENYLRGRLTKRYMQQHGYLKWRFDRSSGPILCQVCRTRRIAYKRCVTCRL
NLCNDCLKAFHSDVAMQDHVFVDTSAEDQDEKICIHHPSSRINEYCRSDNQLLCAFCKIAFHNG
HDTVSLIDACSERSAALFSAIAKFKAVRYEIDNDLMEFNILKSSFKADKEAKRKEVRNGFLKLR
AILQEKEKIIMEQIENLEVSRQKEIEKYVYITTMKVNEMDGLIAYSKEALKETGQVAFLQSAKI
LVDQIEEGIQNTFRPDPQLRLHSLHCIPLDFAELSSAIHELFPTGPKKTCSSGDSLPSQYPVHS
EMMIARKVTFSTHSFGNQQIYQRSSSLISFNTANDKGKAGLENYGRAQSAAPAKTTDGLYTYWS
ATGETQPPQSSNSFHNWYSFNDTSVRTPGPIVIYQTLVYPRAAKVYWTCPTEDVDSFEMEFYEL
ITTPPNNVRTELCGQIRDIMQQNLELHNLTPNTEYLFKVRAINENGPGQWSDICKVVTPDGRGK
NRAKWGLLKNIQSALQKRF

hide sequence

Ensembl Acc Id:

ENSRNOP00000066659 ⟸ ENSRNOT00000071936

Protein Domains

B box-type COS Fibronectin type-III RING-type

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5PQK3-F1-model_v2	AlphaFold	Q5PQK3	1-723	view protein structure

Transcriptome

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

Promoters

RGD ID:

13696198

Promoter ID:

EPDNEW_R6723

Type:

single initiation site

Name:

Trim42_1

Description:

tripartite motif-containing 42

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	8	105,226,566 - 105,226,626	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1359699	AgrOrtholog
BioCyc Gene	G2FUF-29425	BioCyc
Ensembl Genes	ENSRNOG00000048975	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000071936	ENTREZGENE
	ENSRNOT00000071936.4	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.10	UniProtKB/TrEMBL
	4.10.830.40	UniProtKB/TrEMBL
	Classic Zinc Finger	UniProtKB/TrEMBL
	Zinc/RING finger domain, C3HC4 (zinc finger)	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7131982	IMAGE-MGC_LOAD
InterPro	COS_domain	UniProtKB/TrEMBL
	E3_ubiq-ligase_TRIM/RNF	UniProtKB/TrEMBL
	FN3_sf	UniProtKB/TrEMBL
	FN_III	UniProtKB/TrEMBL
	Ig-like_fold	UniProtKB/TrEMBL
	TRIM42_RING-HC	UniProtKB/TrEMBL
	TRIM45/56/19	UniProtKB/TrEMBL
	Znf_B-box	UniProtKB/TrEMBL
	Znf_RING	UniProtKB/TrEMBL
	Znf_RING/FYVE/PHD	UniProtKB/TrEMBL
	Znf_RING_CS	UniProtKB/TrEMBL
KEGG Report	rno:301106	UniProtKB/TrEMBL
MGC_CLONE	MGC:95199	IMAGE-MGC_LOAD
NCBI Gene	301106	ENTREZGENE
PANTHER	B-BOX DOMAIN CONTAINING	UniProtKB/TrEMBL
	BONUS, ISOFORM C-RELATED	UniProtKB/TrEMBL
	E3 UBIQUITIN-PROTEIN LIGASE TRIM56	UniProtKB/TrEMBL
	TRIPARTITE MOTIF-CONTAINING PROTEIN 42	UniProtKB/TrEMBL
Pfam	fn3	UniProtKB/TrEMBL
	zf-B_box	UniProtKB/TrEMBL
PhenoGen	Trim42	PhenoGen
PROSITE	COS	UniProtKB/TrEMBL
	FN3	UniProtKB/TrEMBL
	ZF_BBOX	UniProtKB/TrEMBL
	ZF_RING_1	UniProtKB/TrEMBL
	ZF_RING_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000048975	RatGTEx
SMART	BBOX	UniProtKB/TrEMBL
	FN3	UniProtKB/TrEMBL
	RING	UniProtKB/TrEMBL
Superfamily-SCOP	B-box zinc-binding domain	UniProtKB/TrEMBL
	FN_III-like	UniProtKB/TrEMBL
	RING/U-box	UniProtKB/TrEMBL
UniProt	A6I2A4_RAT	UniProtKB/TrEMBL
	Q5PQK3	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-05-24	Trim42	tripartite motif-containing 42	LOC100365108	tripartite motif-containing 42-like	Data merged from RGD:2319665	1643240	APPROVED
2010-05-05	LOC100365108	tripartite motif-containing 42-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-03-30	Trim42	tripartite motif-containing 42	LOC301106	similar to RIKEN cDNA 4930486B16	Symbol and Name updated	1299863	APPROVED
2005-07-29	LOC301106	similar to RIKEN cDNA 4930486B16			Symbol and Name status set to provisional	70820	PROVISIONAL

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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