Trim38 (tripartite motif containing 38)

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Gene: Trim38 (tripartite motif containing 38) Rattus norvegicus

Analyze

Symbol:

Trim38

Name:

tripartite motif containing 38

RGD ID:

1596868

Description:

Predicted to enable transcription coactivator activity and ubiquitin protein ligase activity. Predicted to be involved in positive regulation of I-kappaB kinase/NF-kappaB signaling; positive regulation of NF-kappaB transcription factor activity; and positive regulation of viral entry into host cell. Predicted to act upstream of or within several processes, including positive regulation of viral genome replication; protein K48-linked ubiquitination; and regulation of interferon-beta production. Orthologous to human TRIM38 (tripartite motif containing 38); INTERACTS WITH (S)-colchicine (ortholog); 1,2-dichloroethane (ortholog); 3-isobutyl-1-methyl-7H-xanthine (ortholog).

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

E3 ubiquitin-protein ligase TRIM38; LOC680019; similar to tripartite motif-containing 38

RGD Orthologs

Human

Mouse

Bonobo

Dog

Squirrel

Pig

Green Monkey

Alliance Genes

More Info

more info ...

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	17	41,351,857 - 41,365,021 (-)	NCBI	mRatBN7.2	mRatBN7.2
Rnor_6.0	17	43,600,006 - 43,607,879 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	45,454,492 - 45,462,066 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	48,533,590 - 48,541,164 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	17	40,983,646 - 40,991,519 (-)	NCBI		Celera
Cytogenetic Map	17	p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-colchicine (ISO)

1,2-dichloroethane (ISO)

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

4,4'-sulfonyldiphenol (ISO)

adenine (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (ISO)

butanal (ISO)

calcitriol (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

crotonaldehyde (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

ethyl methanesulfonate (ISO)

etoposide (ISO)

hydroxyurea (ISO)

indometacin (ISO)

leflunomide (ISO)

mercury dibromide (ISO)

methyl methanesulfonate (ISO)

mitomycin C (ISO)

nickel atom (ISO)

nickel sulfate (ISO)

panobinostat (ISO)

paracetamol (ISO)

perfluorononanoic acid (ISO)

phenylmercury acetate (ISO)

quercetin (ISO)

resveratrol (ISO)

SB 431542 (ISO)

selenium atom (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

temozolomide (ISO)

testosterone (ISO)

testosterone enanthate (ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

triptonide (ISO)

troglitazone (ISO)

urethane (ISO)

valproic acid (ISO)

vitamin E (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of defense response to virus (ISO)

positive regulation of DNA-binding transcription factor activity (ISO)

positive regulation of I-kappaB kinase/NF-kappaB signaling (ISO)

positive regulation of NF-kappaB transcription factor activity (ISO)

positive regulation of viral entry into host cell (ISO)

positive regulation of viral genome replication (ISO)

proteasome-mediated ubiquitin-dependent protein catabolic process (ISO)

protein K48-linked ubiquitination (ISO)

regulation of interferon-beta production (ISO)

Molecular Function

protein binding (ISO)

transcription coactivator activity (ISO)

ubiquitin protein ligase activity (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12761501	PMID:18248090	PMID:22539786	PMID:23077300	PMID:36061751

Genomics

Comparative Map Data

Trim38
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	17	41,351,857 - 41,365,021 (-)	NCBI	mRatBN7.2	mRatBN7.2
Rnor_6.0	17	43,600,006 - 43,607,879 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	17	45,454,492 - 45,462,066 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	48,533,590 - 48,541,164 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	17	40,983,646 - 40,991,519 (-)	NCBI		Celera
Cytogenetic Map	17	p11	NCBI

TRIM38
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	25,962,802 - 26,000,108 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	6	25,962,802 - 25,991,231 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	25,963,030 - 25,991,459 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	26,071,050 - 26,093,337 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	26,071,049 - 26,093,329	NCBI
Celera	6	27,190,286 - 27,212,582 (+)	NCBI		Celera
Cytogenetic Map	6	p22.2	NCBI
HuRef	6	25,905,972 - 25,930,614 (+)	NCBI		HuRef
CHM1_1	6	25,965,160 - 25,989,826 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	6	25,828,703 - 25,857,166 (+)	NCBI		T2T-CHM13v2.0

Trim38
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	23,962,483 - 23,975,721 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	23,953,896 - 23,975,511 (+)	Ensembl		GRCm39 Ensembl
GRCm38	13	23,778,500 - 23,791,731 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	23,769,913 - 23,791,528 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	23,874,441 - 23,883,364 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	23,790,037 - 23,798,960 (+)	NCBI		MGSCv36	mm8
Celera	13	24,014,284 - 24,023,174 (+)	NCBI		Celera
Cytogenetic Map	13	A3.1	NCBI

TRIM38
(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	6	36,610,178 - 36,631,143 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	25,796,278 - 25,818,610 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	26,454,051 - 26,475,842 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	26,454,051 - 26,475,842 (+)	Ensembl	panpan1.1		panPan2

TRIM38
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	35	23,894,521 - 23,939,392 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	35	23,926,287 - 23,939,466 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	35	23,805,035 - 23,818,264 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	35	24,010,055 - 24,054,777 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	35	24,041,848 - 24,054,577 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	35	23,826,346 - 23,871,192 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	35	23,876,839 - 23,913,812 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	35	25,310,095 - 25,354,827 (+)	NCBI		UU_Cfam_GSD_1.0

Trim38
(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_024404946	1,769,006 - 1,779,866 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936671	1,841,662 - 1,854,306 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936671	1,841,722 - 1,853,804 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TRIM38
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	20,682,652 - 20,704,192 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	20,682,536 - 20,694,340 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

TRIM38
(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	17	46,269,498 - 46,292,050 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	46,268,289 - 46,292,092 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666044	25,899,176 - 25,922,157 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Variants

Variants in Trim38
35 total Variants

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	60781592	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	69599340	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	69599340	Rat
1354596	Bw32	Body weight QTL 32	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	17	4299130	60781592	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	4299130	69599340	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	4299130	69599340	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	4299130	69599340	Rat
2303627	Vencon8	Ventilatory control QTL 8		0.001	respiration trait (VT:0001943)	tidal volume (CMO:0000222)	17	4528038	49528038	Rat
10054088	Scort28	Serum corticosterone level QTL 28	2.04	0.0102	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	4528038	49528038	Rat
2303561	Bw91	Body weight QTL 91	2		body mass (VT:0001259)	body weight (CMO:0000012)	17	8868462	53868462	Rat
1331765	Hrtrt15	Heart rate QTL 15	4.094		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	17	15330613	55836425	Rat
1354640	Scl32	Serum cholesterol level QTL 32	5.4		blood HDL cholesterol amount (VT:0000184)	blood high density lipoprotein cholesterol level (CMO:0000052)	17	15781592	60781592	Rat
1354659	Scl68	Serum cholesterol level QTL 68	3.9		blood VLDL cholesterol amount (VT:0005144)	blood very low density lipoprotein cholesterol level (CMO:0000648)	17	15781592	60781592	Rat
7394837	Memor18	Memory QTL 18			exploratory behavior trait (VT:0010471)	measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)	17	18640182	63640182	Rat
1354628	Stl13	Serum triglyceride level QTL 13	3.8		blood triglyceride amount (VT:0002644)	blood triglyceride level (CMO:0000118)	17	21293039	60781592	Rat
70157	Niddm32	Non-insulin dependent diabetes mellitus QTL 32	4.34		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	22454924	50909196	Rat
61394	Bp8	Blood pressure QTL 8	2.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	23080567	59555013	Rat
7488966	Bp370	Blood pressure QTL 370		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	23653184	57246843	Rat
12903978	Cm118	Cardiac mass QTL 118		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	17	23653184	68653184	Rat
12903979	Cm119	Cardiac mass QTL 119		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	23653184	68653184	Rat
12903980	Cm120	Cardiac mass QTL 120		0.002	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	17	23653184	68653184	Rat
12903981	Am17	Aortic mass QTL 17		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	17	23653184	68653184	Rat
1559055	Bp278	Blood pressure QTL 278		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	23653184	68653184	Rat
12903982	Kidm70	Kidney mass QTL 70		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	23653184	70974005	Rat
1354619	Bp242	Blood pressure QTL 242	6.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	24599340	69599340	Rat
1581512	Cm55	Cardiac mass QTL 55	2.8	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	17	27027949	56836890	Rat
4889955	Bss93	Bone structure and strength QTL 93	4.4		tibia size trait (VT:0100001)	tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)	17	27027949	60463643	Rat
2302377	Scl61	Serum cholesterol level QTL 61	4.36		blood HDL cholesterol amount (VT:0000184)	serum high density lipoprotein cholesterol level (CMO:0000361)	17	27389946	53481766	Rat
8552928	Pigfal9	Plasma insulin-like growth factor 1 level QTL 9	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	28409147	73409147	Rat
9590107	Sffal7	Serum free fatty acids level QTL 7	4.81	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	17	28409147	73409147	Rat
10450503	Bp386	Blood pressure QTL 386		0.28	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	31368391	62109574	Rat
2324621	Coatc5	Coat color QTL 5			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	17	31368391	73951021	Rat
2313854	Bp343	Blood pressure QTL 343	3.9		life span trait (VT:0005372)	age at time of death (CMO:0001193)	17	31990784	50909196	Rat
724549	Niddm56	Non-insulin dependent diabetes mellitus QTL 56		0.03	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	31990784	76990784	Rat
1354663	Bvd5	Brain ventricular dilatation QTL 5	3.51	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	31990784	81292925	Rat
1300148	Bp192	Blood pressure QTL 192	3.47		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	17	34550843	73951021	Rat
724528	Uae4	Urinary albumin excretion QTL 4	4.9	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	17	35837085	69599340	Rat
2301412	Kidm40	Kidney mass QTL 40		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	37479847	82479847	Rat
2317054	Aia12	Adjuvant induced arthritis QTL 12	4.24		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	38281509	83281509	Rat
2317060	Aia26	Adjuvant induced arthritis QTL 26	3.22		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	38281509	83281509	Rat
1598871	Memor5	Memory QTL 5	5.3		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	17	40540041	80387013	Rat
1358295	Aocep1	Aortic cell protein QTL 1	6.1	0.00000071	thoracic aorta cellular protein amount (VT:0010598)	aortic cell percentage	17	40990005	85990005	Rat
631497	Bp98	Blood pressure QTL 98	3.66		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	41354651	60463643	Rat

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_017587660	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017600771	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039096440	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC130391	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000289	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

XM_039096440 ⟹ XP_038952368

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	17	41,351,857 - 41,365,021 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_038952368	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_038952368 ⟸ XM_039096440

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1596868	AgrOrtholog
BioCyc Gene	G2FUF-9388	BioCyc
NCBI Gene	680019	ENTREZGENE
PhenoGen	Trim38	PhenoGen

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2014-11-07	Trim38	tripartite motif containing 38	LOC680019	similar to tripartite motif-containing 38	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC680019	similar to tripartite motif-containing 38			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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