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Gene: Slirp (SRA stem-loop interacting RNA binding protein) Rattus norvegicus

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Symbol:

Slirp

Name:

SRA stem-loop interacting RNA binding protein

RGD ID:

1585290

Description:

Predicted to enable mRNA binding activity. Predicted to be involved in mitochondrial mRNA polyadenylation and negative regulation of mitochondrial mRNA catabolic process. Predicted to act upstream of or within several processes, including flagellated sperm motility; negative regulation of mitochondrial RNA catabolic process; and spermatid development. Predicted to be located in several cellular components, including acrosomal vesicle; perinuclear region of cytoplasm; and sperm flagellum. Predicted to be part of ribonucleoprotein complex. Predicted to be active in mitochondrial matrix. Orthologous to human SLIRP (SRA stem-loop interacting RNA binding protein); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC688717; similar to CG33714-PB, isoform B; SRA stem-loop-interacting RNA-binding protein; SRA stem-loop-interacting RNA-binding protein, mitochondrial

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	6	112,819,684 - 112,828,715 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	6	112,819,448 - 112,828,715 (+)	Ensembl				GRCr8
mRatBN7.2	6	107,088,760 - 107,097,791 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	107,088,403 - 107,097,791 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	6	107,257,674 - 107,266,700 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	107,556,491 - 107,565,517 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	106,926,189 - 106,935,215 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	111,476,768 - 111,486,039 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	111,476,768 - 111,486,039 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	6	120,757,482 - 120,766,753 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	6	111,682,052 - 111,691,083 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	6	104,908,488 - 104,917,534 (+)	NCBI		Celera
Cytogenetic Map	6	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

mitochondrial encephalomyopathy (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

3',5'-cyclic UMP (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amitrole (EXP)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

beta-lapachone (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

Butylbenzyl phthalate (ISO)

carbon nanotube (ISO)

chloropicrin (ISO)

cobalt dichloride (ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

DDE (ISO)

diclofenac (ISO)

epoxiconazole (ISO)

eugenol (EXP)

fenthion (ISO)

fenvalerate (EXP)

fipronil (EXP)

folic acid (ISO)

FR900359 (ISO)

gold atom (ISO)

gold(0) (ISO)

hydralazine (ISO)

ibuprofen (ISO)

inulin (ISO)

ivermectin (ISO)

lead(0) (ISO)

lipopolysaccharide (ISO)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

methidathion (ISO)

methimazole (EXP)

oxaliplatin (EXP)

ozone (EXP,ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

propiconazole (EXP)

resveratrol (ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

tetrachloromethane (ISO)

thiram (ISO)

toluene (EXP)

topotecan (EXP)

trichloroethene (EXP)

triphenyl phosphate (ISO)

tungsten (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA-templated transcription (IEA)

flagellated sperm motility (ISO)

mitochondrial mRNA polyadenylation (ISO)

mitochondrion organization (ISO)

negative regulation of mitochondrial mRNA catabolic process (ISO)

negative regulation of mitochondrial RNA catabolic process (ISO)

single fertilization (ISO)

spermatid development (ISO)

Cellular Component

acrosomal vesicle (ISO)

cytoplasm (ISO)

mitochondrial matrix (ISO)

mitochondrion (IEA,ISO)

nucleus (IEA)

perinuclear region of cytoplasm (ISO)

ribonucleoprotein complex (ISO)

sperm flagellum (ISO)

Molecular Function

mRNA binding (ISO)

nucleic acid binding (IEA)

protein binding (ISO)

RNA 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.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:16762838	PMID:18614015	PMID:20833797	PMID:22045337	PMID:22658674	PMID:22681889	PMID:23976951

Genomics

Comparative Map Data

Slirp
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	112,819,684 - 112,828,715 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	6	112,819,448 - 112,828,715 (+)	Ensembl				GRCr8
mRatBN7.2	6	107,088,760 - 107,097,791 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	107,088,403 - 107,097,791 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	6	107,257,674 - 107,266,700 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	107,556,491 - 107,565,517 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	106,926,189 - 106,935,215 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	111,476,768 - 111,486,039 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	111,476,768 - 111,486,039 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	6	120,757,482 - 120,766,753 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	6	111,682,052 - 111,691,083 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	6	104,908,488 - 104,917,534 (+)	NCBI		Celera
Cytogenetic Map	6	q31	NCBI

SLIRP
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	77,708,071 - 77,717,598 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	77,708,045 - 77,761,104 (+)	Ensembl			hg38	GRCh38
GRCh37	14	78,174,414 - 78,183,941 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	77,244,188 - 77,253,694 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	14	77,244,187 - 77,253,692	NCBI
Celera	14	58,212,937 - 58,222,439 (+)	NCBI		Celera
Cytogenetic Map	14	q24.3	NCBI
HuRef	14	58,340,405 - 58,349,918 (+)	NCBI		HuRef
CHM1_1	14	78,113,886 - 78,123,414 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	14	71,917,426 - 71,926,933 (+)	NCBI		T2T-CHM13v2.0

Slirp
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	87,490,666 - 87,496,694 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	87,490,666 - 87,498,976 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	12	87,443,896 - 87,449,924 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	87,443,896 - 87,452,206 (+)	Ensembl			mm10	GRCm38
MGSCv37	12	88,784,846 - 88,790,874 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	12	88,333,015 - 88,339,021 (+)	NCBI		MGSCv36	mm8
Celera	12	88,908,518 - 88,914,546 (+)	NCBI		Celera
Cytogenetic Map	12	D2	NCBI
cM Map	12	41.67	NCBI

Slirp
(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_004955438	1,556,462 - 1,561,561 (+)	Ensembl
ChiLan1.0	NW_004955438	1,556,462 - 1,561,561 (+)	NCBI	ChiLan1.0	ChiLan1.0

SLIRP
(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	15	78,794,056 - 78,803,744 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	78,010,561 - 78,020,249 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	58,262,126 - 58,271,829 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	77,462,870 - 77,472,380 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	77,462,875 - 77,516,882 (+)	Ensembl			panPan2	panpan1.1

SLIRP
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	50,471,175 - 50,478,923 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	50,471,228 - 50,481,268 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	50,158,600 - 50,166,343 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	50,705,481 - 50,713,228 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	50,705,533 - 50,715,572 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	50,367,496 - 50,375,211 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	50,390,405 - 50,398,346 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	50,789,298 - 50,797,024 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Slirp
(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_024408640	25,574,410 - 25,582,177 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936488	6,485,981 - 6,495,522 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936488	6,486,807 - 6,494,555 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLIRP
(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	100,710,234 - 100,720,374 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	7	100,710,472 - 100,718,290 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

SLIRP
(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	24	54,967,400 - 54,976,596 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	54,966,605 - 54,978,597 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666053	43,154,008 - 43,163,502 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slirp
(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_004624734	24,191,979 - 24,197,680 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624734	24,191,944 - 24,196,944 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Slirp
(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	7	101,541,770 - 101,548,477 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Slirp
99 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	267
Count of miRNA genes:	177
Interacting mature miRNAs:	204
Transcripts:	ENSRNOT00000016479
Prediction methods:	Microtar, Miranda
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
4145119	Mcs25	Mammary carcinoma susceptibility QTL 25		0.0001	mammary gland integrity trait (VT:0010552)	ratio of deaths to total study population during a period of time (CMO:0001023)	6	71278722	116278722	Rat
4145118	Mcs26	Mammary carcinoma susceptibility QTL 26		0.0001	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	112483610	147156653	Rat
2293088	Iddm28	Insulin dependent diabetes mellitus QTL 28	5.21		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	6	68767270	135411972	Rat
1331799	Bp211	Blood pressure QTL 211	3.66407		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	88019181	136741135	Rat
1581563	Uae33	Urinary albumin excretion QTL 33			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	93560258	136550638	Rat
10054138	Gmadr3	Adrenal mass QTL 3	3.68	0.00045	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	6	90871046	135871046	Rat
1641917	Colcr5	Colorectal carcinoma resistance QTL 5	3.18	0.0009	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	6	98944780	143944780	Rat
71111	Iddm8	Insulin dependent diabetes mellitus QTL 8	1.9	0.002	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	6	110921244	147156653	Rat
61414	Pia3	Pristane induced arthritis QTL 3	4.5		joint integrity trait (VT:0010548)	post-insult time to onset of experimental arthritis (CMO:0001450)	6	100704576	136029228	Rat
724524	Uae2	Urinary albumin excretion QTL 2	2.7	0.0005	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	79198463	144254945	Rat
1358355	Srcrt4	Stress Responsive Cort QTL 4	6.39		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	106095977	147156653	Rat
737827	Hcar11	Hepatocarcinoma resistance QTL 11	4.4		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	6	46050607	116278722	Rat
2303624	Vencon5	Ventilatory control QTL 5	4.45		respiration trait (VT:0001943)	minute ventilation (CMO:0000132)	6	93778632	138778632	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	20859430	113082285	Rat
61329	Eae9	Experimental allergic encephalomyelitis QTL 9	3.7		body mass (VT:0001259)	change in body weight (CMO:0002045)	6	84490437	129490437	Rat
10054123	Srcrt6	Stress Responsive Cort QTL 6	2.5	0.0043	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	90871046	135871046	Rat
724536	Uae7	Urinary albumin excretion QTL 7	3.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	93560258	136550638	Rat
2313399	Anxrr28	Anxiety related response QTL 28			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	6	101593607	138161926	Rat
1576302	Schws4	Schwannoma susceptibility QTL 4		0.0078	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	78204640	123204640	Rat
1581550	Pur8	Proteinuria QTL 8			urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	6	93560258	136550638	Rat
1300075	Glom7	Glomerulus QTL 7	5.6	0.0000002	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	6	76937178	121937178	Rat
1331725	Bp212	Blood pressure QTL 212	3.52475		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	99437079	125323237	Rat
12801471	Schws9	Schwannoma susceptibility QTL 9			nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	101593607	146593607	Rat

Markers in Region

RH135332

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	107,095,527 - 107,095,720 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	111,483,776 - 111,483,968	NCBI	Rnor6.0
Rnor_5.0	6	120,764,490 - 120,764,682	UniSTS	Rnor5.0
RGSC_v3.4	6	111,688,820 - 111,689,012	UniSTS	RGSC3.4
Celera	6	104,915,261 - 104,915,453	UniSTS
RH 3.4 Map	6	747.9	UniSTS
Cytogenetic Map	6	q31	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.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	165	91	90	59	92	59	6	356	192	11	144	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001109507	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC166913	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473982	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ211825	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ223545	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000016479 ⟹ ENSRNOP00000016479

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	112,819,448 - 112,828,715 (+)	Ensembl
mRatBN7.2 Ensembl	6	107,088,403 - 107,097,791 (+)	Ensembl
Rnor_6.0 Ensembl	6	111,476,768 - 111,486,039 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000110874 ⟹ ENSRNOP00000087255

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	112,819,684 - 112,825,912 (+)	Ensembl
mRatBN7.2 Ensembl	6	107,088,760 - 107,094,988 (+)	Ensembl

RefSeq Acc Id:

NM_001109507 ⟹ NP_001102977

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	112,819,684 - 112,828,715 (+)	NCBI
mRatBN7.2	6	107,088,760 - 107,097,791 (+)	NCBI
Rnor_6.0	6	111,476,768 - 111,486,039 (+)	NCBI
Rnor_5.0	6	120,757,482 - 120,766,753 (+)	NCBI
RGSC_v3.4	6	111,682,052 - 111,691,083 (+)	RGD
Celera	6	104,908,488 - 104,917,534 (+)	RGD

Sequence:

show sequence

GTTGCGAACAGTTTGGCCCGGAAGCAGAACTCCAAATTCCGGATCCTGTAAGTTCTTCCGAGGT
CACGACCCCAGGCTTTGGTTCATTCAGTTTTAACATGGCAGCCTCCGCGGTAAAAGGACTAACT
GCGTTGCGTTCCCGTACTGGTCGGCCTATAGCGTTTATTAGAAAAATTCCTTGGACCGCGGCAT
CGAGTGAGCTAAGAGAACATTTTGCTCAGTTTGGCCATGTAAGAAGGTGCACTGTACCTTTTGA
CAAAGAGACTGGCTTTCACAGAGGCATGGGTTGGGTTCAGTTTTCTTCACAGGAAGAACTTCAG
AATGCACTACAAGAAGAACATCATATTATTGATGGAGTAGAAATCCATGTTCAACCTCAAAAAC
CAAAGGTTTTGCACGGGGCTCAAACATCTGATGAAGAGAAAGATTTCTGACATGATCAGTGTCC
TGTCCACTAAATAAACAGAACTTAGACTTTTTCTAAATGTGTTTTTTTTTTTTTTTTTGAAACT
AGTTTGCACTAAGCAAGAACTTGGTTTCCCCACTGCACAGTAGAAGAGTCCAACAGGGCAAATG
CATCTGCCAGCACAGTTCGAGTGTATGAGCATCCACCTACTAACCATTTGGGGTAATTCATAAA
GTTCTTACAGAAAATTTTACCCCTGGATTAGCAAGGAAGTAGCCTCAATTTTGTCAGGGGCAGT
ATTTTTTATAAGTGCTGCAAGATTGGAGAGGCACAAACACAGACCATTCTTTATAAAAACTACT
GCGAAATAGAATATGCATTGCCTCTATCTCCTGGATGGAAGGAGTGTTGGGATCTATCACCCAG
ATTTGGTTTGTTTTTTTTTTTAATTTTTTTTTTAAATACAGTCCAGTTGTTATCCCCCTCCCCA
TCATCTCTCCAAAAATTCCTCTTCCCCTGTCTCCAAGAGGATGCCCCACCCCACCCCCCCACCC
CCCAGGCTTCCCCATTCTTTGTGGTCTCAAGTCTCTTGAGGGTTAGGTCCATTTTCTCTCACTC
TGGCCAGACCAGGCAGTCCTCTGCTGTATACGTCAGATTTAATTTCAAGAGGCCCATCTACTCC
TTCCTTCGCTTCTTGCCTTCATGTTCATGTTCCTTGGGGCGACTGCTATCTGAAGGTCTTTTAG
ACCCACCATGCTGTTTTGCTTCTTCCAAAAATTTGTCCAAACCAAAAGGATCTTCCTCAAACTG
AACTGGTCCTTCTCGGCCTCTCTTTCTACCATCTGAACCTGAAAACTCTTTATCAGGAACAAAT
CTAGGGGGAAAAGAGAAGAAGTTATGAACTATTTCTGTTTTGCTGGTGTAAACAGGAATGAACA
GCAACTGTCTGCATTTGGTACCTGTTGGTCTTTATCCTGGTTTCGAGGTCATCGCCATACATGT
CCTTGTCCAGATTTTTACTCGGCCTATAGATACTCTGAGCCATATCTTTGCCACCTCTCCAGGC
TTGATCATAAACATTGTAAATTTCATCTTCTCCACCTGCAAATCCACTGTCCATACCCTGTGGA
AAAAATGAATGACACCAAATAAAAATGTATACTTATCCAAAGCTGAATCTAAATGCTTAGGAAT
TAATAGACACACGTTTACAGCTAATTAAGAAATCGCAACTACAATATTTATGTAAAATAGTAAG
TATACAGTTGTTTATACACATTTGAGTTCTTACTTAGAAACTAAAATTAAATCAGAGTATTCAT
TAGATTAGGTTAATCCCAGCACTAATGAGGCAAGCAGGTGAGTCTCTGCCAGTCTGAATATCAC
GTTCTAAGACAGCCAGAGCTATATAACATTCCCGGTCTCACACGACAGCAAAGTTCTGACTAAC
CAAAAATAAAAGACAATGGCTAGGCGTGGTGACGCATAGCTTTAATCCCAACACTCACAAGCAG
AGGCAGGCAGATCTGGTTTACAAAGTGAATTCAGGACAGCAAGGATACACCTAGAACCCATCTT
CAAAACCCAAAACTGAAGAACAAATAAAAACCCCAATCCAAGAAAAACAAGACAGAAAGTTGGC
TGTGTAGAGAAGGAGGGGTGGATCTGGGAGCAGGTGGAGGAGAGTGAATATGGTAAAATTCAAT
TGTATGAAGTCCTCAGGAAAAAAAGAAAAAGAAAATCAACTAAAAATGTCATTAAAATTGAAGG
ATTGTATTGTGGGTACTGGACAATGATGCTGAGAAAAGTTACCTCAACTGCCTGAGAATGTCAG
TATTAATTAAAGCACAAGATCATAAGGTCCTCAATGAAAATCTTAAAATCTTAAAAACTTTAAT
TCAGCTTTTAAAAGGTTTAAGCTCAAGGTCAGAAGAGATGGCTGCTGTGAAAGATTTACTCCTG
TGGCGCCTCCACCCCAACTCCTGCTCAGTCTGGCTGATGCTGCACAGCAGTTATGAAAGAAGCT
TTGGCATCAAAGCATTCAAGGTTGAATCTCAGTTCCATCAATGACTCGATCCTGTCTTAATTAT
CCATGAGAGGTAATAGGGTGGGTGCTGCAGAGACAGTTCAGTGTTAAAGCAGTTTCTACATAAA
CATGAGGGCCCAGGCTTGGATTCCTAGGACCCATGTAAATGATAGGTGGGTGTGGAAGCTTGCG
TAACTCCATCCTCTGAAGATGCAGACAGGAAATCTCAGAGCAGGCTGGGTAATTCTATCAGTGA
GTTCTGGGATGGACTGAGAGATCTGCCTCAGTGAATAATGTGGAAGGCAGAGTGATAAAGACAA
TTCCCAACATCAATTTCCAACATAAACATATGCATGTACACATACTGCCTACACATGCAAACAT
GCATACGAATG

hide sequence

Protein Sequences


Protein RefSeqs	NP_001102977	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL81654	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000016479.5
	ENSRNOP00000087255.1

RefSeq Acc Id:	NP_001102977 ⟸ NM_001109507
- UniProtKB:	A6JEA9 (UniProtKB/TrEMBL), A6JEB0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAASAVKGLTALRSRTGRPIAFIRKIPWTAASSELREHFAQFGHVRRCTVPFDKETGFHRGMGW VQFSSQEELQNALQEEHHIIDGVEIHVQPQKPKVLHGAQTSDEEKDF hide sequence

Ensembl Acc Id:

ENSRNOP00000016479 ⟸ ENSRNOT00000016479

Ensembl Acc Id:

ENSRNOP00000087255 ⟸ ENSRNOT00000110874

Protein Domains

RRM

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A4W6-F1-model_v2	AlphaFold	D4A4W6	1-111	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694762

Promoter ID:

EPDNEW_R5285

Type:

multiple initiation site

Name:

Slirp_1

Description:

SRA stem-loop interacting RNA binding protein

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	6	111,476,857 - 111,476,917	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1585290	AgrOrtholog
BioCyc Gene	G2FUF-36705	BioCyc
Ensembl Genes	ENSRNOG00000012314	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000016479.6	UniProtKB/TrEMBL
	ENSRNOT00000110874.2	UniProtKB/TrEMBL
Gene3D-CATH	3.30.70.330	UniProtKB/TrEMBL
InterPro	GR-RBP	UniProtKB/TrEMBL
	Nucleotide-bd_a/b_plait_sf	UniProtKB/TrEMBL
	RBD_domain_sf	UniProtKB/TrEMBL
	RRM_RNP1	UniProtKB/TrEMBL
	SLIRP_RRM	UniProtKB/TrEMBL
KEGG Report	rno:688717	UniProtKB/TrEMBL
NCBI Gene	688717	ENTREZGENE
PANTHER	HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN 87F-RELATED	UniProtKB/TrEMBL
Pfam	RRM_1	UniProtKB/TrEMBL
PhenoGen	Slirp	PhenoGen
PROSITE	RRM	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000012314	RatGTEx
SMART	RRM	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54928	UniProtKB/TrEMBL
UniProt	A0A8I6A2V8_RAT	UniProtKB/TrEMBL
	A6JEA9	ENTREZGENE, UniProtKB/TrEMBL
	A6JEB0	ENTREZGENE, UniProtKB/TrEMBL
	D4A4W6_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2011-08-02	Slirp	SRA stem-loop interacting RNA binding protein	LOC688717	similar to CG33714-PB, isoform B	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-01-09	LOC688717	similar to CG33714-PB, isoform B	LOC681987	similar to CG33714-PB, isoform B	Data merged from RGD:1589292	1643240	APPROVED
2006-11-19	LOC688717	similar to CG33714-PB, isoform B			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC681987	similar to CG33714-PB, isoform B			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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