Isy1 (ISY1 splicing factor homolog)

Gene: Isy1 (ISY1 splicing factor homolog) Rattus norvegicus

Analyze

Symbol:

Isy1

Name:

ISY1 splicing factor homolog

RGD ID:

1307688

Description:

Predicted to be involved in generation of catalytic spliceosome for second transesterification step and mRNA 3'-splice site recognition. Predicted to be located in nucleus. Predicted to be part of Prp19 complex and spliceosomal complex. Orthologous to several human genes including ISY1 (ISY1 splicing factor homolog); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

ISY1 splicing factor homolog (S. cerevisiae); Isy1-rab43; ISY1-RAB43 readthrough; LOC362394; pre-mRNA-splicing factor ISY1 homolog; RGD1307688; similar to RIKEN cDNA 5830446M03

RGD Orthologs

Alliance Genes

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):	ISY1 (ISY1 splicing factor homolog)	HGNC	Ensembl, Inparanoid, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Isy1 (ISY1 splicing factor homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Isy1 (ISY1 splicing factor homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	ISY1 (ISY1 splicing factor homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	ISY1 (ISY1 splicing factor homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LOC102162880 (pre-mRNA-splicing factor ISY1 homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	ISY1 (ISY1 splicing factor homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Isy1 (ISY1 splicing factor homolog)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	ISY1-RAB43 (ISY1-RAB43 readthrough)	HGNC	HomoloGene, Treefam
Homo sapiens (human):	RAB43 (RAB43, member RAS oncogene family)	HGNC	OrthoDB
Alliance orthologs ³
Mus musculus (house mouse):	Isy1 (ISY1 splicing factor homolog)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	ISY1 (ISY1 splicing factor homolog)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	ISY1-RAB43 (ISY1-RAB43 readthrough)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	isy1 (ISY1 splicing factor homolog)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	ISY1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG9667	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	isy-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	isy1	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)

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	4	121,833,870 - 121,854,561 (-)	NCBI		GRCr8
mRatBN7.2	4	120,276,535 - 120,297,227 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	120,276,292 - 120,297,188 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	125,755,473 - 125,776,233 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	121,530,265 - 121,551,018 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	120,154,502 - 120,175,256 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	119,721,659 - 119,742,349 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	119,721,660 - 119,742,349 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	184,972,994 - 184,993,684 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	122,006,785 - 122,027,475 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	122,251,266 - 122,271,956 (-)	NCBI
Celera	4	109,237,067 - 109,257,757 (-)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

alkaptonuria (ISO)

genetic disease (ISO)

immunodeficiency 21 (ISO)

Primary Lymphedema with Myelodysplasia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

2-methylcholine (ISO)

3,3',4,4'-tetrachlorobiphenyl (ISO)

6-propyl-2-thiouracil (EXP)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

cadmium dichloride (EXP)

choline (ISO)

cobalt dichloride (EXP)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

CU-O LINKAGE (ISO)

dicrotophos (ISO)

disulfiram (ISO)

doxorubicin (ISO)

erythromycin estolate (EXP)

fenthion (ISO)

folic acid (ISO)

FR900359 (ISO)

glyphosate (EXP)

ivermectin (ISO)

L-methionine (ISO)

methidathion (ISO)

methimazole (EXP)

oxaliplatin (EXP)

paracetamol (EXP)

pirinixic acid (ISO)

resveratrol (ISO)

sodium arsenate (ISO)

tamoxifen (ISO)

tetrachloromethane (ISO)

toluene (EXP)

topotecan (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

generation of catalytic spliceosome for second transesterification step (IBA,IEA)

mRNA 3'-splice site recognition (IBA,IEA)

mRNA splicing, via spliceosome (ISO,ISS)

Cellular Component

catalytic step 2 spliceosome (IBA,IEA,ISO)

nucleus (ISO,ISS)

post-mRNA release spliceosomal complex (IBA,IEA)

post-spliceosomal complex (IBA,IEA)

Prp19 complex (IBA,IEA)

U2-type catalytic step 1 spliceosome (ISO,ISS)

Molecular Function

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

spliceosome pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Splicing and beyond: the many faces of the Prp19 complex.	Chanarat S and Strasser K, Biochim Biophys Acta. 2013 Oct;1833(10):2126-34. doi: 10.1016/j.bbamcr.2013.05.023. Epub 2013 Jun 3.
2.	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.
3.	GOA pipeline	RGD automated data pipeline
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	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.

Additional References at PubMed

PMID:11991638	PMID:15489334	PMID:22658674	PMID:29301961

Genomics

Comparative Map Data

Isy1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	121,833,870 - 121,854,561 (-)	NCBI		GRCr8
mRatBN7.2	4	120,276,535 - 120,297,227 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	120,276,292 - 120,297,188 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	125,755,473 - 125,776,233 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	121,530,265 - 121,551,018 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	120,154,502 - 120,175,256 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	119,721,659 - 119,742,349 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	119,721,660 - 119,742,349 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	184,972,994 - 184,993,684 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	122,006,785 - 122,027,475 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	122,251,266 - 122,271,956 (-)	NCBI
Celera	4	109,237,067 - 109,257,757 (-)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

ISY1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	129,127,415 - 129,161,063 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	129,127,415 - 129,161,063 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	128,846,258 - 128,879,906 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	130,330,925 - 130,362,719 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	3	127,279,847 - 127,296,403 (-)	NCBI		Celera
Cytogenetic Map	3	q21.3	NCBI
HuRef	3	126,232,620 - 126,266,455 (-)	NCBI		HuRef
CHM1_1	3	128,809,709 - 128,843,507 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	3	131,872,317 - 131,905,969 (-)	NCBI		T2T-CHM13v2.0

Isy1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	87,795,429 - 87,815,723 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	87,791,251 - 87,815,780 (-)	Ensembl		GRCm39 Ensembl
GRCm38	6	87,818,447 - 87,838,923 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	87,814,269 - 87,838,798 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	87,768,441 - 87,788,753 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	87,784,088 - 87,804,400 (-)	NCBI		MGSCv36	mm8
Celera	6	89,755,774 - 89,776,088 (-)	NCBI		Celera
Cytogenetic Map	6	D1	NCBI
cM Map	6	39.13	NCBI

Isy1
(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_004955429	13,511,914 - 13,527,516 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955429	13,513,191 - 13,527,516 (-)	NCBI	ChiLan1.0	ChiLan1.0

ISY1
(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	127,062,204 - 127,098,841 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	127,066,927 - 127,100,331 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	126,187,354 - 126,219,355 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	133,545,726 - 133,575,974 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	133,545,726 - 133,575,974 (-)	Ensembl	panpan1.1		panPan2

ISY1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	2,945,636 - 2,972,245 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	2,945,720 - 2,972,245 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	2,982,811 - 3,008,961 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	20	2,966,468 - 2,993,064 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	20	2,966,789 - 2,996,303 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	20	2,686,460 - 2,712,607 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	20	3,009,520 - 3,035,724 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	20	2,973,956 - 3,000,161 (+)	NCBI		UU_Cfam_GSD_1.0

LOC102162880
(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	71,599,237 - 71,622,840 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	71,601,737 - 71,622,835 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	79,186,720 - 79,207,558 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ISY1
(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	22	51,905,564 - 51,940,705 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	51,907,290 - 51,938,847 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	114,430,973 - 114,474,500 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Isy1
(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 1.0	NW_004624943	968,193 - 984,683 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Isy1
60 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	62
Count of miRNA genes:	42
Interacting mature miRNAs:	45
Transcripts:	ENSRNOT00000013571
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	5214602	146446691	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	11320076	180699135	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	38465774	146803430	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	44463720	155883716	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	44463908	148090542	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	44463908	148090542	Rat
2312567	Glom19	Glomerulus QTL 19	1.9	0.006	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	4	45456990	146803430	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	50119848	146803430	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	56647873	149491524	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	56698790	126192555	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	59948935	154902892	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	59948935	154902892	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	59948935	154902892	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	62277855	128289560	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	64528739	157573521	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	70362013	132642728	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	73169846	132642728	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	78878504	123878504	Rat
738015	Pia9	Pristane induced arthritis QTL 9	4.5	0.048	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	80694870	125694870	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	81192555	126192555	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	82798864	152731274	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	83428419	177635233	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	84728680	129854654	Rat
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	85253748	148090731	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	85253748	150276390	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	85379421	167139601	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	86730991	131730991	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	87327165	132327165	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	87327165	132327165	Rat
1578655	Bmd11	Bone mineral density QTL 11	11		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	4	90850165	135850165	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	93308457	167139447	Rat
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	95174120	140174120	Rat
61434	Cia3	Collagen induced arthritis QTL 3	4.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	103194656	148194656	Rat
2302049	Pia32	Pristane induced arthritis QTL 32	5.1	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	105789505	150789505	Rat
731165	Uae21	Urinary albumin excretion QTL 21	2.4	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	106649412	151649412	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	106805662	151805662	Rat
7207480	Bss105	Bone structure and strength QTL 105	8.1		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	4	109827074	154827074	Rat
1549832	Bss3	Bone structure and strength QTL 3	11		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	4	109827074	154827074	Rat
737821	Hcar9	Hepatocarcinoma resistance QTL 9	3.7		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	109866907	167139601	Rat
1331759	Hrtrt13	Heart rate QTL 13	3.54628		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	110275411	168266883	Rat
6478760	Anxrr45	Anxiety related response QTL 45		0.06717	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110870972	155870972	Rat
6478763	Anxrr46	Anxiety related response QTL 46		0.07428	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110870972	155870972	Rat
12798519	Anxrr54	Anxiety related response QTL 54	2.54	0.05	locomotor behavior trait (VT:0001392)	distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)	4	114627026	159627026	Rat
1300116	Hrtrt5	Heart rate QTL 5	3.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	116179486	151161268	Rat
724535	Cm18	Cardiac mass QTL 18	2.6		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	4	118856416	163856416	Rat
1331802	Srn5	Serum renin concentration QTL 5	3.045		renin activity (VT:0005581)	plasma renin activity level (CMO:0000116)	4	119428175	157578333	Rat
12798527	Anxrr58	Anxiety related response QTL 58	4.11	0.05	locomotor behavior trait (VT:0001392)	distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)	4	119463257	147278687	Rat
70201	Gcr1	Gastric cancer resistance QTL 1	2.7		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	4	120260281	147278687	Rat

Markers in Region

RH138640

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	120,288,742 - 120,288,990 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	119,733,866 - 119,734,113	NCBI	Rnor6.0
Rnor_5.0	4	184,985,201 - 184,985,448	UniSTS	Rnor5.0
RGSC_v3.4	4	122,018,992 - 122,019,239	UniSTS	RGSC3.4
Celera	4	109,249,274 - 109,249,521	UniSTS
RH 3.4 Map	4	712.5	UniSTS
Cytogenetic Map	4	q34	UniSTS

RH139686

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	120,276,375 - 120,276,525 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	119,721,500 - 119,721,649	NCBI	Rnor6.0
Rnor_5.0	4	184,972,835 - 184,972,984	UniSTS	Rnor5.0
RGSC_v3.4	4	122,006,626 - 122,006,775	UniSTS	RGSC3.4
Celera	4	109,236,908 - 109,237,057	UniSTS
RH 3.4 Map	4	711.8	UniSTS
Cytogenetic Map	4	q34	UniSTS

BI274365

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	4	120,297,462 - 120,297,587 (+)	MAPPER	mRatBN7.2
Rnor_6.0	4	119,742,585 - 119,742,709	NCBI	Rnor6.0
Rnor_5.0	4	184,993,920 - 184,994,044	UniSTS	Rnor5.0
RGSC_v3.4	4	122,027,711 - 122,027,835	UniSTS	RGSC3.4
Celera	4	109,257,993 - 109,258,117	UniSTS
RH 3.4 Map	4	711.9	UniSTS
Cytogenetic Map	4	q34	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	36	46	30	19	30	5	8	74	35	41	11	5
Low		7	11	11		11	3	3					3
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001014188	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC097129	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC079119	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ218201	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000013571 ⟹ ENSRNOP00000013571

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	4	120,276,292 - 120,297,188 (-)	Ensembl
Rnor_6.0 Ensembl	4	119,721,660 - 119,742,349 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000093886 ⟹ ENSRNOP00000078536

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	4	120,276,302 - 120,297,121 (-)	Ensembl

RefSeq Acc Id:

NM_001014188 ⟹ NP_001014210

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	4	121,833,870 - 121,854,561 (-)	NCBI
mRatBN7.2	4	120,276,535 - 120,297,227 (-)	NCBI
Rnor_6.0	4	119,721,659 - 119,742,349 (-)	NCBI
Rnor_5.0	4	184,972,994 - 184,993,684 (-)	NCBI
RGSC_v3.4	4	122,006,785 - 122,027,475 (-)	RGD
Celera	4	109,237,067 - 109,257,757 (-)	RGD

Sequence:

show sequence

GTTCCCGCGCCTGCCTGCCTCGTTCCGGGCGCCTAAGCACGTTGTGTAGCGGCGCGGCGCCGGG
GCGCCCTCGCCGGCACCATGGCCCGAAATGCAGAAAAAGCCATGACTGCCCTAGCGAGATTCCG
GCAAGCTCAGCTGGAAGAGGGAAAGGTCAAGGAACGGAGACCTTTCCTTGCTTCCGAGTGCACA
GAACTGCCAAAAGCAGAGAAGTGGAGACGGCAGATCATTGGAGAGATCTCAAAAAAAGTTGCTC
AGATTCAGAATGCTGGTTTAGGGGAATTCCGAATCCGAGACCTGAATGATGAAATTAACAAGCT
GCTGAGGGAGAAAGGACACTGGGAGGTCCGGATCAAGGAGCTGGGCGGCCCTGACTATGGAAAA
GTTGGCCCCAAGATGCTGGATCACGAAGGTAAAGAAGTCCCAGGAAACCGAGGTTACAAGTACT
TTGGGGCAGCGAAAGATTTGCCTGGTGTCAGAGAGCTATTCGAGAAAGAGCCCCTTCCTCCTCC
CAGAAAGACACGTGCTGAGCTCATGAAGGCAATCGATTTTGAGTACTATGGTTACCTGGATGAA
GATGATGGAGTGATTGTGCCCTTGGAGCAAGAGTACGAGAAGAGACTCAGGGCTGAGCTGGTGG
AAAAATGGAAAGCAGAGAGAGAGGCTCGGCTGGCAAGGGGAGAAAAGGAAGAGGAGGAGGAGGA
AGAGGAGATCAACATCTATGCCGTCACCGAGGAGGAGTCTGATGAGGAAGGCAGCCAGGAGAAG
GCAGGGGAAGACGGTCAGCAGAAGTTCATTGCTCATGTTCCGGTGCCGTCACAGCAGGAGATTG
AGGAGGCGCTTGTACGGAGGAAGAAAATGGAACTGCTCCAGAAATACGCAAGCGAGACTCTGCA
GGCACAGAGTGAAGAGGCCAAGCGGCTCCTGGGGTACTAGGCCAGAGCCCTCACTCCTGGGATA
CGAGGCCAAGCCAGAGCCCTTACTCCTGGGGTACTAGGCCAAGCCAGAGCCCTCACTCCTGGGG
TACTAGACTGTAGGCCGAGCCAGAGCCCTCACTCCTGGGGTACTAGGCCGAGCCAGAGCCCTCA
CTCCTGGGGTACTAGGCCAAGCCAGAGCCCTTACTCTGGTGGGTGTGCTCGGTACGCCATGGCC
GCCATCCTCATAGCTGCCCTGGGCTGTGGCTAGGCTGGCTGGCTCTGGGATGCCCTGGGCCTTT
CTCACCCTTGATCTTGCCTCCTCTCTGGACATGTGAGCTGGCCTGATGGTAGGGCCTGTCCCTT
CCCAGTAAGCTGCCAGGGAACTGAATGCATTAGTAACCATCATTTCGTACAGATGCTTTTGATA
CCATATGGATCCATTTATTTTTATTTTGGAATGTGTAAAATCTGTTCTGAAAATTTATTCTGTA
CTATGATTTTGGGAATTGAGAAGGATCAATTAGTAGCCAGTTTTTAAAAATACATGATTTTTAT
TCAAATCAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001014210	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH79119	(Get FASTA)	NCBI Sequence Viewer
	EDL91288	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000013571
	ENSRNOP00000013571.4
	ENSRNOP00000078536.1
	ENSRNOP00055018056
	ENSRNOP00060034851
	ENSRNOP00065019554
GenBank Protein	Q6AYB3	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001014210 ⟸ NM_001014188

- UniProtKB:

Q6AYB3 (UniProtKB/Swiss-Prot), A6IB20 (UniProtKB/TrEMBL), A0A8I5ZL45 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MARNAEKAMTALARFRQAQLEEGKVKERRPFLASECTELPKAEKWRRQIIGEISKKVAQIQNAG
LGEFRIRDLNDEINKLLREKGHWEVRIKELGGPDYGKVGPKMLDHEGKEVPGNRGYKYFGAAKD
LPGVRELFEKEPLPPPRKTRAELMKAIDFEYYGYLDEDDGVIVPLEQEYEKRLRAELVEKWKAE
REARLARGEKEEEEEEEEINIYAVTEEESDEEGSQEKAGEDGQQKFIAHVPVPSQQEIEEALVR
RKKMELLQKYASETLQAQSEEAKRLLGY

hide sequence

RefSeq Acc Id:

ENSRNOP00000013571 ⟸ ENSRNOT00000013571

RefSeq Acc Id:

ENSRNOP00000078536 ⟸ ENSRNOT00000093886

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q6AYB3-F1-model_v2	AlphaFold	Q6AYB3	1-284	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693225

Promoter ID:

EPDNEW_R3748

Type:

initiation region

Name:

Isy1_1

Description:

ISY1 splicing factor 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	4	119,742,401 - 119,742,461	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1307688	AgrOrtholog
BioCyc Gene	G2FUF-43851	BioCyc
Ensembl Genes	ENSRNOG00000010021	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ENSRNOG00055012975	UniProtKB/Swiss-Prot
	ENSRNOG00060024260	UniProtKB/Swiss-Prot
	ENSRNOG00065015091	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000013571	ENTREZGENE
	ENSRNOT00000013571.6	UniProtKB/Swiss-Prot
	ENSRNOT00000093886.1	UniProtKB/TrEMBL
	ENSRNOT00055022227	UniProtKB/Swiss-Prot
	ENSRNOT00060042025	UniProtKB/Swiss-Prot
	ENSRNOT00065024984	UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.287.660	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7126525	IMAGE-MGC_LOAD
InterPro	Helix_hairpin_bin_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Isy1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Isy1_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:362394	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE	MGC:94120	IMAGE-MGC_LOAD
NCBI Gene	362394	ENTREZGENE
PANTHER	PRE-MRNA-SPLICING FACTOR ISY1 HOMOLOG	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR13021	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Isy1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Isy1	PhenoGen
RatGTEx	ENSRNOG00000010021	RatGTEx
	ENSRNOG00055012975	RatGTEx
	ENSRNOG00060024260	RatGTEx
	ENSRNOG00065015091	RatGTEx
Superfamily-SCOP	SSF140102	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I5ZL45	ENTREZGENE, UniProtKB/TrEMBL
	A6IB20	ENTREZGENE, UniProtKB/TrEMBL
	ISY1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-07-09	Isy1	ISY1 splicing factor homolog	Isy1	ISY1 splicing factor homolog (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-11-26	Isy1	ISY1 splicing factor homolog (S. cerevisiae)	Isy1-rab43	ISY1-RAB43 readthrough	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-18	Isy1-rab43	ISY1-RAB43 readthrough	Isy1	ISY1 splicing factor homolog (S. cerevisiae)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-07	Isy1	ISY1 splicing factor homolog (S. cerevisiae)	RGD1307688	similar to RIKEN cDNA 5830446M03	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	RGD1307688	similar to RIKEN cDNA 5830446M03	RGD1307688_predicted	similar to RIKEN cDNA 5830446M03 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-20	RGD1307688_predicted	similar to RIKEN cDNA 5830446M03 (predicted)	LOC362394_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC362394_predicted	similar to RIKEN cDNA 5830446M03 (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)

Imported Disease Annotations - ClinVar

RGD Manual Annotations

Send us a Message

Imported Disease Annotations - ClinVar

RGD Manual Annotations