Tyw1 (tRNA-yW synthesizing protein 1 homolog)

Gene: Tyw1 (tRNA-yW synthesizing protein 1 homolog) Rattus norvegicus

Analyze

Symbol:

Tyw1

Name:

tRNA-yW synthesizing protein 1 homolog

RGD ID:

1310420

Description:

Predicted to enable 4 iron, 4 sulfur cluster binding activity; ion binding activity; and lyase activity. Predicted to be involved in wybutosine biosynthetic process. Predicted to be located in membrane. Orthologous to several human genes including TYW1 (tRNA-yW synthesizing protein 1 homolog); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC103690026; LOC304423; radical S-adenosyl methionine and flavodoxin domains 1; RGD1310420; Rsafd1; S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase-like; similar to hypothetical protein FLJ10900; tRNA wybutosine-synthesizing protein 1 homolog; tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)

RGD Orthologs

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
GRCr8	12	31,968,198 - 32,054,454 (-)	NCBI		GRCr8
mRatBN7.2	12	26,332,020 - 26,418,286 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	26,330,351 - 26,418,208 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	27,480,231 - 27,566,470 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	28,090,756 - 28,176,978 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	27,149,061 - 27,235,174 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	29,824,990 - 29,919,240 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	29,824,981 - 29,919,320 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	31,761,916 - 31,856,112 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Rnor_5.0	12	31,135,209 - 31,178,761 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	27,368,907 - 27,455,110 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	27,232,122 - 27,318,272 (-)	NCBI
Celera	12	28,046,508 - 28,132,529 (-)	NCBI		Celera
Cytogenetic Map	12	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

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

1,2-dichloroethane (ISO)

1-naphthyl isothiocyanate (EXP)

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

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

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

4,4'-diaminodiphenylmethane (EXP)

acetamide (EXP)

acrolein (ISO)

aflatoxin B1 (ISO)

alpha-pinene (ISO)

amphetamine (EXP)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

cisplatin (ISO)

cyclosporin A (ISO)

finasteride (EXP)

flutamide (EXP)

fulvestrant (ISO)

glyphosate (EXP)

inulin (ISO)

isoprenaline (ISO)

leflunomide (EXP)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

pirinixic acid (ISO)

silver atom (ISO)

silver(0) (ISO)

sulindac (EXP)

tetrachloromethane (EXP)

thioacetamide (EXP)

topotecan (EXP)

triptonide (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

wybutosine biosynthetic process (IBA)

Cellular Component

membrane (IEA)

Molecular Function

4 iron, 4 sulfur cluster binding (IEA)

FMN binding (IEA)

lyase activity (IEA)

metal 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.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932

Genomics

Comparative Map Data

Tyw1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	31,968,198 - 32,054,454 (-)	NCBI		GRCr8
mRatBN7.2	12	26,332,020 - 26,418,286 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	26,330,351 - 26,418,208 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	27,480,231 - 27,566,470 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	28,090,756 - 28,176,978 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	27,149,061 - 27,235,174 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	29,824,990 - 29,919,240 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	29,824,981 - 29,919,320 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	31,761,916 - 31,856,112 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Rnor_5.0	12	31,135,209 - 31,178,761 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	27,368,907 - 27,455,110 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	27,232,122 - 27,318,272 (-)	NCBI
Celera	12	28,046,508 - 28,132,529 (-)	NCBI		Celera
Cytogenetic Map	12	q12	NCBI

TYW1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	66,996,833 - 67,239,514 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	66,995,173 - 67,239,514 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	66,461,820 - 66,704,501 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	66,099,252 - 66,341,934 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	65,905,966 - 66,148,646	NCBI
Celera	7	65,404,719 - 65,654,392 (-)	NCBI		Celera
Cytogenetic Map	7	q11.21	NCBI
HuRef	7	62,645,117 - 62,888,045 (+)	NCBI		HuRef
CHM1_1	7	66,557,015 - 66,797,606 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	68,216,506 - 68,459,212 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	65,799,354 - 66,042,069 (+)	NCBI

Tyw1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	130,284,460 - 130,370,408 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	130,284,460 - 130,370,404 (+)	Ensembl		GRCm39 Ensembl
GRCm38	5	130,255,572 - 130,341,568 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	130,255,619 - 130,341,563 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	130,731,489 - 130,817,437 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	130,540,322 - 130,625,860 (+)	NCBI		MGSCv36	mm8
Celera	5	127,268,547 - 127,354,754 (+)	NCBI		Celera
Cytogenetic Map	5	G1.3	NCBI
cM Map	5	69.0	NCBI

LOC479708
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	1,263,661 - 1,502,800 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	2,963,338 - 3,202,262 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	1,068,769 - 1,314,298 (+)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	6	1,003,760 - 1,243,099 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	1,005,554 - 1,251,074 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	1,177,346 - 1,423,042 (+)	NCBI		UU_Cfam_GSD_1.0

TYW1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	3	15,969,573 - 16,160,652 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	16,268,153 - 16,407,307 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

Variants

Variants in Tyw1
663 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	278
Count of miRNA genes:	165
Interacting mature miRNAs:	184
Transcripts:	ENSRNOT00000038092
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.

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
1581516	Cm56	Cardiac mass QTL 56	4.2	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	1	29333307	Rat
1598855	Bp294	Blood pressure QTL 294	3.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	1	34851688	Rat
7411660	Foco28	Food consumption QTL 28	10.9	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
9590086	Insglur6	Insulin/glucose ratio QTL 6	18.97	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	12	1	42110980	Rat
8694179	Bw150	Body weight QTL 150	2.9	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
7411586	Foco5	Food consumption QTL 5	5.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411595	Foco9	Food consumption QTL 9	4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411545	Bw128	Body weight QTL 128	5.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
9590147	Scort7	Serum corticosterone level QTL 7	13.61	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	12	1	42110980	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	1	42450532	Rat
737979	Pia22	Pristane induced arthritis QTL 22	53.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	1	44465750	Rat
634351	Apr5	Acute phase response QTL 5	6.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	12	1	44503507	Rat
2302042	Pia38	Pristane induced arthritis QTL 38	3.5	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	1	44503507	Rat
634350	Apr4	Acute phase response QTL 4	6		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	1172005	46172005	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	5564495	46669029	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564498	46669029	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	6107579	46669029	Rat
1302792	Scl21	Serum cholesterol level QTL 21	3.8	0.0011	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	12	7196730	46669029	Rat
2293086	Iddm30	Insulin dependent diabetes mellitus QTL 30	3.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	8449490	28302290	Rat
61331	Eau2	Experimental allergic uveoretinitis QTL 2		0.0005	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	12	8525423	28064601	Rat
1300157	Rf21	Renal function QTL 21	4.4		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	12	9318216	32103380	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	9603277	46669029	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	10474137	46669029	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	10474137	46669029	Rat
1331755	Bp219	Blood pressure QTL 219	3.041		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	11073825	28064557	Rat
1331761	Bp218	Blood pressure QTL 218	2.973		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	11073825	45055165	Rat
61404	Bw120	Body weight QTL 120	5.1		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	12	12351619	46669029	Rat
1641928	Alcrsp5	Alcohol response QTL 5			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	12	12812385	46669029	Rat
2303569	Gluco44	Glucose level QTL 44	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	12812385	46669029	Rat
1549902	Bp269	Blood pressure QTL 269			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	13182736	46669029	Rat
1549912	Bp268	Blood pressure QTL 268			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	13182736	46669029	Rat
2302060	Pia37	Pristane induced arthritis QTL 37	6.1	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	13198157	46669029	Rat
61416	Pia4	Pristane induced arthritis QTL 4	8.4		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	12	13635523	30827399	Rat
61421	Cia12	Collagen induced arthritis QTL 12	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	13635523	35682913	Rat
631543	Bp83	Blood pressure QTL 83	5.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	15550826	38478808	Rat
2293684	Bmd26	Bone mineral density QTL 26	4.4	0.0002	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	12	15872653	32974238	Rat
631560	Apr1	Acute phase response QTL 1	6.1		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	19144362	46669029	Rat
737822	Alc10	Alcohol consumption QTL 10	2.2		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	12	19610870	40218516	Rat
5684888	Pia42	Pristane induced arthritis QTL 42			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	19610870	42828880	Rat
61324	Eae5	Experimental allergic encephalomyelitis QTL 5	14		nervous system integrity trait (VT:0010566)	percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)	12	19610870	46669029	Rat
1298081	Cia25	Collagen induced arthritis QTL 25	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	19610889	35682913	Rat
70213	Niddm27	Non-insulin dependent diabetes mellitus QTL 27	3.72		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	19835789	38193007	Rat
7411643	Foco20	Food consumption QTL 20		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	20328819	46669029	Rat
70169	Eae13	Experimental allergic encephalomyelitis QTL 13		0.032	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	12	24139202	36638073	Rat
1331763	Wbc2	White blood cell count QTL 2	3.162		leukocyte quantity (VT:0000217)	total white blood cell count (CMO:0000365)	12	24234777	31894213	Rat

Markers in Region

D12Got63

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_5.0	12	31,788,345 - 31,788,483	NCBI	Rnor5.0
Rnor_5.0	12	31,788,344 - 31,788,483	NCBI	Rnor5.0
Rnor_5.0	12	31,157,480 - 31,157,618	NCBI	Rnor5.0
Rnor_5.0	12	31,157,479 - 31,157,618	NCBI	Rnor5.0
Rnor_5.0	12	31,155,301 - 31,155,440	NCBI	Rnor5.0
Rnor_5.0	12	31,155,302 - 31,155,440	NCBI	Rnor5.0
RGSC_v3.4	12	27,395,102 - 27,395,240	RGD	RGSC3.4
RGSC_v3.4	12	27,395,103 - 27,395,240	UniSTS	RGSC3.4
RGSC_v3.1	12	27,258,319 - 27,258,456	RGD
Celera	12	28,072,703 - 28,072,840	UniSTS
RH 3.4 Map	12	447.2	RGD
RH 3.4 Map	12	447.2	UniSTS
RH 2.0 Map	12	333.4	RGD
Cytogenetic Map	12	q13	UniSTS

RH133721

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	26,332,142 - 26,332,349 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	29,825,113 - 29,825,319	NCBI	Rnor6.0
Rnor_6.0	12	29,181,609 - 29,181,815	NCBI	Rnor6.0
Rnor_5.0	12	31,762,039 - 31,762,245	UniSTS	Rnor5.0
Rnor_5.0	12	31,129,409 - 31,129,615	UniSTS	Rnor5.0
RGSC_v3.4	12	27,369,030 - 27,369,236	UniSTS	RGSC3.4
Celera	12	28,046,631 - 28,046,837	UniSTS
RH 3.4 Map	12	449.0	UniSTS
Cytogenetic Map	12	q13	UniSTS

RH143463

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	26,409,144 - 26,409,339 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	29,910,105 - 29,910,299	NCBI	Rnor6.0
Rnor_5.0	12	31,846,979 - 31,847,173	UniSTS	Rnor5.0
RGSC_v3.4	12	27,445,975 - 27,446,169	UniSTS	RGSC3.4
Celera	12	28,123,406 - 28,123,600	UniSTS
RH 3.4 Map	12	440.4	UniSTS
Cytogenetic Map	12	q13	UniSTS

AU046764

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	12	26,406,688 - 26,406,846 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	29,907,650 - 29,907,807	NCBI	Rnor6.0
Rnor_5.0	12	31,844,524 - 31,844,681	UniSTS	Rnor5.0
RGSC_v3.4	12	27,443,520 - 27,443,677	UniSTS	RGSC3.4
Celera	12	28,120,954 - 28,121,108	UniSTS
Cytogenetic Map	12	q13	UniSTS

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	22	43	27	19	27	1	4	64	35	41	11	1
Low		21	14	14		14	7	7	10				7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107137	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC116246	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC168924	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000038092 ⟹ ENSRNOP00000038092

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	26,330,351 - 26,418,208 (-)	Ensembl
Rnor_6.0 Ensembl	12	29,824,981 - 29,919,320 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000092883

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	12	29,187,416 - 29,231,053 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000115020 ⟹ ENSRNOP00000090585

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	26,330,351 - 26,418,208 (-)	Ensembl

RefSeq Acc Id:

NM_001107137 ⟹ NP_001100607

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	31,968,198 - 32,054,454 (-)	NCBI
mRatBN7.2	12	26,332,020 - 26,418,286 (-)	NCBI
Rnor_6.0	12	29,824,990 - 29,919,240 (-)	NCBI
Rnor_5.0	12	31,761,916 - 31,856,112 (-)	NCBI
RGSC_v3.4	12	27,368,907 - 27,455,110 (-)	RGD
Celera	12	28,046,508 - 28,132,529 (-)	RGD

Sequence:

show sequence

TGTCCCCTGTAGCCAATGCGGGCGGGCCTGCGGGCGGCATGGCTTCCCTAGCCCTGTAAACCCG
ACCTTCCTGATCTCAGTCCCGGGTTCTCTGTGTTTGCTGGCGATTTGTGGGGCTCGGGCTCCGT
GGAGGATGGGTCCTCCTCTGGATGTGTGGGACTTCTCGTCACCTTTGCTGTCCCTATGGATGAA
CAGGTTCTACATATATATGGGCTGTGCCCTGGGAGTTACGCTTTGGTTCTGTGTCCAGATCATC
ATCAAGAAGCAGGTCACTCGTTCCCAGGAGAAGAGTGTCCCAGGAGCTCCTGATAGCTCCCTCT
CCCCTCAGGAGAAGCATACACACGTGTCTGGAGTGAAGATTTTCTACGGATCACAGACGGGCAC
TGCCAAGGGATTCGCAGTGGTTCTTGCCAAAGCTGTCACCTCTCTGGACCTGCCTGTGGCCATT
ATTAATCTGAAGGAGTATGATCCAGATGACAACCTGATAGGAGAGATCACTAGTAAAAACGTCT
GTGCCTTTCTGGTTGCTACGTACACGGACGGCCGCCCTACGGAGAGCGCAGAGTGGTTCTGCAA
GTGGTTAGAGGAAGCGGCCAATGATTTCCGCTTTGGCAAAACGTACCTGAAAGGACTTCGATAT
GCAGTGTTTGGCCTGGGAGACTCTGCCTACCGGAGCCACTTCAACAAGGTCAGCACGAACGTCG
ACAAATGGCTCTGGATGCTTGGTGCCCAGCGAGTGCTGACCCGAGGGGAGGGCGACTGCAATGC
AGTTCAGAGCAAACATGGCAGCATCGAGGCCGACTTCACAGCCTGGAAGACCAAGTTCATCTCC
CGGCTGCAGGCCCTACAGAGAGGGGAGAAAAAGGGCTGTGGTGGGGACTGCAAGAGAGGGAAGT
GTGAGTCGGCGCAGCATGGCCCAGGAGAGGTGCGGTCTCACCCACACGGCGAATTGCATCCTGG
GGATGCTGAGGAGGAAGAGCCCTGTGAGAGCAGCAGCGAGGACGAGCACGGGACCAAGGGTTAT
CAGAGCCTGAATTCTGTGGTTGATGTCGAGGACCTGGGCAACATCATGAACCCCGTGAAGAGGG
AAAAGAGAGAAAAGGCTCAACCGGAGGAGAAAGTTGTCGTGCACAGGAACTCAGAGAAGAATGA
AGACAGCGAAGCGAGAGCTATGATTACGCCTGCTCTGCGGGAGGCCCTAACTAAACAAGGGTAC
CAGTTGATTGGCAGCCACTCCGGTGTGAAGCTTTGCAGGTGGACCAAGTCCATGCTGCGGGGGC
GAGGAGGTTGCTACAAGCACACATTCTACGGCATCGAGAGCCATCGCTGCATGGAGGCCACCCC
GAGCTTGGCATGTGCGAACAAGTGTGTCTTCTGCTGGCGGCACCATACGAATCCTGTGGGCACG
GAGTGGCGGTGGAAGATGGACCAGCCGGAATTGATCTTGAAGGAAGCCATTGAGAACCATCGGA
ACATGATTAAACAGTTCAAAGGCGTGCCAGGGCTCAAGGCCGAGCGCTTCGAAGAGGGGATGGA
GGTCAAGCACTGTGCGCTGTCACTCGTGGGTGAGCCAATAATGTACCCAGAGATCAACAGGCTT
TTGAAGCTGCTCCACCAGCACGGGATCTCCACTTTCCTTGTCACCAATGCACAGTTCCCTGAGG
AAATCAGGAACCTCACACCAGTTACTCAGCTCTATGTAAGTGTGGACGCCAGCACCAAAGACAG
CCTGAAGAAGATCGACCGCCCGCTCTTCAAGGATTTCTGGCAGCGATTCCTAGACAGTTTGCAA
GCCTTATCTGCAAAGCAACAGCGAACCGTCTACAGACTGACACTTGTGAAGTGTTGGAACGTGG
ACGAGCTCCAGGCCTACGCCGAGCTGGTGTCTTTGGGGAGCCCCGACTTCATCGAGGTCAAGGG
CGTGACCTACTGCGGTGAGAGTGCAGCCAGCAGCCTCACCATGGCCAACGTCCCTTGGCACGAG
GAAGTTGTCCGGTTTGTCCGTGAGCTGGTGGATCTGCTTCCTGACTATGAAATTGCGTGTGAAC
ATGAACACTCCAACTGCCTCCTGATTGGACACAAGAAGTTTAAGATCGGCGGAGAGTGGTGGAC
GTGGATCGATTACAGCCGCTTCCAGGAGCTCGTCCTGCAGTACGAAGAGAGCGGAGGCTCAAAG
ACGTTCAGCTCGAAGGATTACATGGCCAGAACCCCACAGTGGGCCCTGTTTGGTGCCAGGGAAA
GAGGCTTTGATCCCAAGGACACGAGATACCAGAGGAAGAACAAGACGAAGGACATTTCCGGTTG
TTGAGCTTGTCTGAGCTAAGGATCTTCAAAGACAGAAGGTCCTCGTTGCCATCGCTGCCCACAG
GGCACAGTTTCACAGCCGTGTTTTACAGTCTGACACCAGCAGGCAGCCGTGCTGCCCACACAGC
ACCCATACACAGGGCTGGGGACTCCATGCTTCTTACCAGAACTCAGGCCCTTTAATGAGTCGAC
TTCTCAGACAGTGAGGGCGACAGTCACTTCTGGAGTTTTAATAGTTTTGGATTTTATTTTAGTA
ATTTTCCTAAGTGCTGTCCCCGAGTGTTCCTCGGGGAATAAACATCTCTGCCTCTTC

hide sequence

Protein Sequences


Protein RefSeqs	NP_001100607	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI68924	(Get FASTA)	NCBI Sequence Viewer
	EDM13460	(Get FASTA)	NCBI Sequence Viewer
	EDM13461	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000038092
	ENSRNOP00000038092.4
	ENSRNOP00000090585.1

RefSeq Acc Id:

NP_001100607 ⟸ NM_001107137

- UniProtKB:

B5DF48 (UniProtKB/TrEMBL), A6J0M1 (UniProtKB/TrEMBL), A0A8I6AB63 (UniProtKB/TrEMBL), F7FB90 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGPPLDVWDFSSPLLSLWMNRFYIYMGCALGVTLWFCVQIIIKKQVTRSQEKSVPGAPDSSLSP
QEKHTHVSGVKIFYGSQTGTAKGFAVVLAKAVTSLDLPVAIINLKEYDPDDNLIGEITSKNVCA
FLVATYTDGRPTESAEWFCKWLEEAANDFRFGKTYLKGLRYAVFGLGDSAYRSHFNKVSTNVDK
WLWMLGAQRVLTRGEGDCNAVQSKHGSIEADFTAWKTKFISRLQALQRGEKKGCGGDCKRGKCE
SAQHGPGEVRSHPHGELHPGDAEEEEPCESSSEDEHGTKGYQSLNSVVDVEDLGNIMNPVKREK
REKAQPEEKVVVHRNSEKNEDSEARAMITPALREALTKQGYQLIGSHSGVKLCRWTKSMLRGRG
GCYKHTFYGIESHRCMEATPSLACANKCVFCWRHHTNPVGTEWRWKMDQPELILKEAIENHRNM
IKQFKGVPGLKAERFEEGMEVKHCALSLVGEPIMYPEINRLLKLLHQHGISTFLVTNAQFPEEI
RNLTPVTQLYVSVDASTKDSLKKIDRPLFKDFWQRFLDSLQALSAKQQRTVYRLTLVKCWNVDE
LQAYAELVSLGSPDFIEVKGVTYCGESAASSLTMANVPWHEEVVRFVRELVDLLPDYEIACEHE
HSNCLLIGHKKFKIGGEWWTWIDYSRFQELVLQYEESGGSKTFSSKDYMARTPQWALFGARERG
FDPKDTRYQRKNKTKDISGC

hide sequence

RefSeq Acc Id:

ENSRNOP00000038092 ⟸ ENSRNOT00000038092

RefSeq Acc Id:

ENSRNOP00000090585 ⟸ ENSRNOT00000115020

Protein Domains

Flavodoxin-like Radical SAM core

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B5DF48-F1-model_v2	AlphaFold	B5DF48	1-724	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698575

Promoter ID:

EPDNEW_R9099

Type:

multiple initiation site

Name:

Tyw1_1

Description:

tRNA-yW synthesizing protein 1 homolog

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	12	29,919,232 - 29,919,292	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310420	AgrOrtholog
BioCyc Gene	G2FUF-19531	BioCyc
BioCyc Pathway	PWY-7286 [7-(3-amino-3-carboxypropyl)-wyosine biosynthesis]	BioCyc
BioCyc Pathway Image	PWY-7286	BioCyc
Ensembl Genes	ENSRNOG00000024352	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOG00000062153	Ensembl
Ensembl Transcript	ENSRNOT00000038092	ENTREZGENE
	ENSRNOT00000038092.6	UniProtKB/TrEMBL
	ENSRNOT00000115020.1	UniProtKB/TrEMBL
Gene3D-CATH	3.20.20.70	UniProtKB/TrEMBL
	3.40.50.360	UniProtKB/TrEMBL
InterPro	Aldolase_TIM	UniProtKB/TrEMBL
	Flavdoxin	UniProtKB/TrEMBL
	Flavodoxin/NO_synth	UniProtKB/TrEMBL
	Flavoprotein-like	UniProtKB/TrEMBL
	rSAM	UniProtKB/TrEMBL
	tRNA_wybutosine-synth	UniProtKB/TrEMBL
	tRNA_wybutosine-synthase	UniProtKB/TrEMBL
KEGG Report	rno:304423	UniProtKB/TrEMBL
NCBI Gene	304423	ENTREZGENE
PANTHER	PTHR13930	UniProtKB/TrEMBL
	S-ADENOSYL-L-METHIONINE-DEPENDENT TRNA 4-DEMETHYLWYOSINE SYNTHASE TYW1-RELATED	UniProtKB/TrEMBL
Pfam	Flavodoxin_1	UniProtKB/TrEMBL
	Radical_SAM	UniProtKB/TrEMBL
	Wyosine_form	UniProtKB/TrEMBL
PhenoGen	Tyw1	PhenoGen
PRINTS	FLAVODOXIN	UniProtKB/TrEMBL
PROSITE	FLAVODOXIN_LIKE	UniProtKB/TrEMBL
	RADICAL_SAM	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000024352	RatGTEx
	ENSRNOG00000062153	RatGTEx
Superfamily-SCOP	Radical SAM enzymes	UniProtKB/TrEMBL
	SSF52218	UniProtKB/TrEMBL
UniProt	A0A8I6AB63	ENTREZGENE, UniProtKB/TrEMBL
	A6J0M1	ENTREZGENE, UniProtKB/TrEMBL
	B5DF48	ENTREZGENE
	F7FB90	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	B5DF48	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Tyw1	tRNA-yW synthesizing protein 1 homolog	LOC103690026	S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase-like	Data merged from RGD:9339716	737654	PROVISIONAL
2015-11-25	Tyw1	tRNA-yW synthesizing protein 1 homolog	Tyw1	tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2014-08-25	LOC103690026	S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-03-07	Tyw1	tRNA-yW synthesizing protein 1 homolog (S. cerevisiae)	Rsafd1_predicted	radical S-adenosyl methionine and flavodoxin domains 1 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Rsafd1_predicted	radical S-adenosyl methionine and flavodoxin domains 1 (predicted)	RGD1310420_predicted	similar to hypothetical protein FLJ10900 (predicted)	Symbol and Name updated	1299863	APPROVED
2005-01-20	RGD1310420_predicted	similar to hypothetical protein FLJ10900 (predicted)	LOC304423_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC304423_predicted	similar to hypothetical protein FLJ10900 (predicted)			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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