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Gene: Tro (trophinin) Rattus norvegicus

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Symbol:

Tro

Name:

trophinin

RGD ID:

6488256

Description:

Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of cell growth. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human TRO (trophinin); INTERACTS WITH 17beta-estradiol (ortholog); 2-methylcholine (ortholog); actinomycin D (ortholog).

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC100912141; LOC100912175; trophinin-like

RGD Orthologs

Alliance Orthologs

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):	TRO (trophinin)	HGNC	HomoloGene
Mus musculus (house mouse):	Tro (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Tro (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TRO (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TRO (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tro (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TRO (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LOC103232030 (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tro (trophinin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	TRO (trophinin)	Alliance	DIOPT (HGNC)

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
GRCr8	X	22,990,922 - 23,001,955 (-)	NCBI		GRCr8
mRatBN7.2	X	19,563,395 - 19,574,507 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	19,563,517 - 19,572,953 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	X	23,079,809 - 23,090,912 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	X	23,502,729 - 23,511,435 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	X	19,834,549 - 19,843,753 (-)	NCBI		Celera
Cytogenetic Map	X	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

autistic disorder (ISO)

autosomal hemophilia A (ISO)

Cornelia de Lange syndrome 2 (ISO)

factor VIII deficiency (ISO)

syndromic X-linked intellectual disability Lubs type (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17beta-estradiol (ISO)

2-methylcholine (ISO)

actinomycin D (ISO)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (ISO)

buta-1,3-diene (ISO)

butanal (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

camptothecin (ISO)

choline (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

Dibutyl phosphate (ISO)

diquat (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

epoxiconazole (ISO)

folic acid (ISO)

glyphosate (ISO)

hydrogen peroxide (ISO)

L-methionine (ISO)

maneb (ISO)

nickel sulfate (ISO)

Nutlin-3 (ISO)

p-chloromercuribenzoic acid (ISO)

paracetamol (ISO)

paraquat (ISO)

pentanal (ISO)

propanal (ISO)

rotenone (ISO)

SB 431542 (ISO)

selenium atom (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

titanium dioxide (ISO)

tris(2-butoxyethyl) phosphate (ISO)

valproic acid (ISO)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of cell growth (ISO)

Cellular Component

cytoplasm (ISO)

nucleus (ISO)

Molecular Function

protein binding (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:11590179

Genomics

Comparative Map Data

Tro
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	22,990,922 - 23,001,955 (-)	NCBI		GRCr8
mRatBN7.2	X	19,563,395 - 19,574,507 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	19,563,517 - 19,572,953 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	X	23,079,809 - 23,090,912 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	X	23,502,729 - 23,511,435 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	X	19,834,549 - 19,843,753 (-)	NCBI		Celera
Cytogenetic Map	X	q12	NCBI

TRO
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	X	54,920,824 - 54,931,431 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	X	54,920,462 - 54,931,431 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	X	54,947,257 - 54,957,864 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	X	54,963,974 - 54,974,589 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	X	58,782,397 - 58,793,012 (+)	NCBI		Celera
Cytogenetic Map	X	p11.21	NCBI
HuRef	X	51,998,723 - 52,009,749 (+)	NCBI		HuRef
CHM1_1	X	54,937,045 - 54,947,913 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	X	54,213,910 - 54,224,559 (+)	NCBI		T2T-CHM13v2.0

Tro
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	X	149,427,706 - 149,440,579 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	X	149,428,300 - 149,440,579 (-)	Ensembl		GRCm39 Ensembl
GRCm38	X	150,644,710 - 150,657,583 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	X	150,645,304 - 150,657,583 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	X	147,079,846 - 147,091,979 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	X	145,986,019 - 145,998,115 (-)	NCBI		MGSCv36	mm8
Celera	X	133,755,638 - 133,767,712 (+)	NCBI		Celera
Cytogenetic Map	X	F3	NCBI
cM Map	X	68.46	NCBI

Tro
(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	NW_004955475	2,266,522 - 2,278,016 (+)	NCBI	ChiLan1.0	ChiLan1.0

TRO
(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	X	56,316,789 - 56,327,602 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	X	56,320,457 - 56,331,209 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	X	47,131,249 - 47,142,012 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	X	55,362,063 - 55,373,560 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	X	55,363,522 - 55,373,467 (+)	Ensembl	panpan1.1		panPan2

TRO
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	X	46,566,844 - 46,617,430 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	X	37,942,110 - 37,951,258 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	X	46,895,135 - 46,904,283 (+)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	X	46,404,891 - 46,414,038 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	X	46,871,465 - 46,880,614 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	X	46,813,740 - 46,822,888 (+)	NCBI		UU_Cfam_GSD_1.0

Tro
(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	X	39,400,999 - 39,412,531 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936751	1,740,804 - 1,752,256 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TRO
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	X	47,759,334 - 47,772,014 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	X	47,759,334 - 47,772,014 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	X	53,700,769 - 53,708,135 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LOC103232030
(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	X	51,001,421 - 51,015,299 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	X	51,005,208 - 51,013,942 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666086	4,976,998 - 4,989,915 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tro
(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_004624910	291,559 - 303,561 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624910	291,820 - 303,686 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Tro
37 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	85
Count of miRNA genes:	82
Interacting mature miRNAs:	85
Transcripts:	ENSRNOT00000071639
Prediction methods:	Microtar, Miranda, Pita, Rnahybrid
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
70165	Bp64	Blood pressure QTL 64	5.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	X	1448129	31706553	Rat
1298071	Edpm12	Estrogen-dependent pituitary mass QTL 12	3.2		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	X	2927898	47927898	Rat
731181	Uae27	Urinary albumin excretion QTL 27	2.7	0.0059	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	X	1	43491017	Rat
61430	Cia18	Collagen induced arthritis QTL 18	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	X	14843113	120568734	Rat
10755455	Coatc13	Coat color QTL 13		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	4406000	49406000	Rat
631666	Iddm5	Insulin dependent diabetes mellitus QTL 5			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	X	4494549	49494549	Rat
634325	Bw13	Body weight QTL 13	0		body mass (VT:0001259)	body weight (CMO:0000012)	X	1447972	20991088	Rat
631204	Gluco15	Glucose level QTL 15		0.001	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	X	1623715	22646544	Rat
71116	Niddm16	Non-insulin dependent diabetes mellitus QTL 16	7.81		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	X	15297802	60297802	Rat

Markers in Region

AA409408

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	X	19,563,451 - 19,563,547 (-)	MAPPER	mRatBN7.2
Rnor_6.0	X	23,090,760 - 23,090,855	NCBI	Rnor6.0
Rnor_5.0	X	23,511,283 - 23,511,378	UniSTS	Rnor5.0
RGSC_v3.4	X	39,887,375 - 39,887,470	UniSTS	RGSC3.4
Celera	X	19,834,606 - 19,834,701	UniSTS

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.

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001427428	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008758390	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017588209	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017602179	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279713	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279714	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279715	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279716	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAXUCZ010000021	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000096771 ⟹ ENSRNOP00000082371

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	X	19,563,517 - 19,572,953 (-)	Ensembl

RefSeq Acc Id:

NM_001427428 ⟹ NP_001414357

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	22,990,922 - 23,001,944 (-)	NCBI

RefSeq Acc Id:

XM_063279713 ⟹ XP_063135783

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	22,990,922 - 23,001,703 (-)	NCBI

RefSeq Acc Id:

XM_063279714 ⟹ XP_063135784

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	22,990,922 - 23,001,651 (-)	NCBI

RefSeq Acc Id:

XM_063279715 ⟹ XP_063135785

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	22,990,922 - 23,001,944 (-)	NCBI

RefSeq Acc Id:

XM_063279716 ⟹ XP_063135786

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	22,990,922 - 23,001,955 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001414357	(Get FASTA)	NCBI Sequence Viewer
	XP_063135783	(Get FASTA)	NCBI Sequence Viewer
	XP_063135784	(Get FASTA)	NCBI Sequence Viewer
	XP_063135785	(Get FASTA)	NCBI Sequence Viewer
	XP_063135786	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000082371.1

Ensembl Acc Id:

ENSRNOP00000082371 ⟸ ENSRNOT00000096771

RefSeq Acc Id:	XP_063135786 ⟸ XM_063279716
- Peptide Label:	isoform X2

RefSeq Acc Id:

NP_001414357 ⟸ NM_001427428

RefSeq Acc Id:	XP_063135785 ⟸ XM_063279715
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_063135783 ⟸ XM_063279713
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_063135784 ⟸ XM_063279714
- Peptide Label:	isoform X1

Protein Domains

MAGE

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:6488256	AgrOrtholog
BioCyc Gene	G2FUF-2809	BioCyc
Ensembl Genes	ENSRNOG00000067844	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000096771.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.10.1200	UniProtKB/TrEMBL
	1.10.10.1210	UniProtKB/TrEMBL
InterPro	MAGE	UniProtKB/TrEMBL
	MAGE_WH1	UniProtKB/TrEMBL
	MAGE_WH2	UniProtKB/TrEMBL
	MHD_dom	UniProtKB/TrEMBL
NCBI Gene	Tro	ENTREZGENE
PANTHER	PTHR11736	UniProtKB/TrEMBL
	TROPHININ	UniProtKB/TrEMBL
Pfam	MAGE	UniProtKB/TrEMBL
PhenoGen	Tro	PhenoGen
PROSITE	MAGE	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000067844	RatGTEx
SMART	MAGE	UniProtKB/TrEMBL
UniProt	A0A8I6G9D7_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-11-20	Tro	trophinin	LOC100912141	trophinin-like	Data merged from RGD:6488704	737654	APPROVED
2013-08-09	Tro	trophinin	LOC100912175	trophinin-like	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-05	LOC100912175	trophinin-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2012-07-05	LOC100912141	trophinin-like			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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