SDC1 (syndecan 1) - Rat Genome Database

Name: SDC1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: SDC1 (syndecan 1) Homo sapiens

Analyze

Symbol:

SDC1

Name:

syndecan 1

RGD ID:

730864

HGNC Page

HGNC

Description:

Enables identical protein binding activity and protein C-terminus binding activity. Involved in positive regulation of exosomal secretion; positive regulation of extracellular exosome assembly; and striated muscle cell development. Located in cell surface. Biomarker of Hodgkin's lymphoma and hyperglycemia.

Type:

protein-coding

RefSeq Status:

REVIEWED

Previously known as:

CD138; CD138 antigen; heparan sulfate proteoglycan fibroblast growth factor receptor; SDC; SYND1; syndecan; syndecan proteoglycan 1; syndecan-1

RGD Orthologs

Mouse

Rat

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Mus musculus (house mouse):	Sdc1 (syndecan 1)	HGNC	EggNOG, Ensembl, HGNC, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Rattus norvegicus (Norway rat):	Sdc1 (syndecan 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, Panther, PhylomeDB
Chinchilla lanigera (long-tailed chinchilla):	Sdc1 (syndecan 1)	NCBI	Ortholog
Pan paniscus (bonobo/pygmy chimpanzee):	SDC1 (syndecan 1)	NCBI	Ortholog
Canis lupus familiaris (dog):	SDC1 (syndecan 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sdc1 (syndecan 1)	NCBI	Ortholog
Sus scrofa (pig):	SDC1 (syndecan 1)	HGNC	Ensembl, Inparanoid, NCBI, OMA, OrthoDB, Panther
Chlorocebus sabaeus (green monkey):	SDC1 (syndecan 1)	NCBI	Ortholog
Heterocephalus glaber (naked mole-rat):	Sdc1 (syndecan 1)	NCBI	Ortholog
Alliance orthologs ³
Rattus norvegicus (Norway rat):	Sdc1 (syndecan 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Mus musculus (house mouse):	Sdc1 (syndecan 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|Roundup\|TreeFam)
Caenorhabditis elegans (roundworm):	sdn-1	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|Roundup)
Drosophila melanogaster (fruit fly):	Sdc	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Allele / Splice:

See ClinVar data

Latest Assembly:

GRCh38 - Human Genome Assembly GRCh38

Position:

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	20,200,797 - 20,225,475 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	2	20,200,797 - 20,225,433 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	20,400,558 - 20,425,236 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	20,264,039 - 20,288,675 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	2	20,322,187 - 20,346,555	NCBI
Celera	2	20,262,845 - 20,287,481 (-)	NCBI
Cytogenetic Map	2	p24.1	NCBI
HuRef	2	20,158,155 - 20,182,491 (-)	NCBI		HuRef
CHM1_1	2	20,329,922 - 20,354,554 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	20,234,345 - 20,259,019 (-)	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

COVID-19 (HEP)

cranioectodermal dysplasia 2 (IAGP)

familial hyperlipidemia (ISO)

Hodgkin's lymphoma (IEP)

hyperglycemia (IEP)

Inflammation (IMP)

long QT syndrome (IAGP)

Lymphoma, AIDS-Related (IEP)

malignant mesothelioma (EXP)

myocardial infarction (ISO)

obesity (ISO)

proteinuria (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-colchicine (EXP)

1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane (ISO)

1,2-dimethylhydrazine (ISO)

1-naphthyl isothiocyanate (EXP)

17alpha-ethynylestradiol (EXP,ISO)

17beta-estradiol (ISO)

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

2-butoxyethanol (ISO)

2-methylcholine (EXP)

3',5'-cyclic AMP (ISO)

3,3',4,4',5-pentachlorobiphenyl (ISO)

3H-1,2-dithiole-3-thione (ISO)

6-propyl-2-thiouracil (ISO)

acrolein (EXP)

acrylamide (EXP)

adenine (EXP)

afimoxifene (EXP)

aflatoxin B1 (EXP)

all-trans-retinoic acid (EXP,ISO)

alpha-pinene (EXP)

ammonium chloride (ISO)

Apratastat (EXP)

arsane (EXP)

arsenic atom (EXP)

arsenous acid (EXP)

benzo[a]pyrene (EXP,ISO)

beta-naphthoflavone (EXP)

bisphenol A (EXP,ISO)

calcitriol (EXP)

camptothecin (EXP)

carbon nanotube (ISO)

carbonyl sulfide (ISO)

carmustine (EXP)

chloropicrin (EXP)

cisplatin (EXP,ISO)

cobalt dichloride (EXP)

copper atom (EXP,ISO)

copper(0) (EXP,ISO)

copper(II) sulfate (EXP)

corticosterone (ISO)

cumene (ISO)

cyclosporin A (EXP)

daunorubicin (EXP)

deoxynivalenol (EXP)

dexamethasone (EXP)

diarsenic trioxide (EXP)

dioxygen (EXP,ISO)

diuron (ISO)

doxorubicin (EXP,ISO)

enzyme inhibitor (EXP)

ethyl methanesulfonate (EXP)

etoposide (EXP)

fenamidone (ISO)

flavonoids (ISO)

folic acid (ISO)

formaldehyde (EXP)

genistein (ISO)

graphite (ISO)

heparin (EXP)

hydroxychloroquine (EXP)

ivermectin (EXP)

ketamine (ISO)

lipopolysaccharide (ISO)

methapyrilene (ISO)

methotrexate (EXP)

methyl methanesulfonate (EXP)

methyltestosterone (EXP)

miconazole (ISO)

nimesulide (ISO)

obeticholic acid (EXP)

oxaliplatin (EXP,ISO)

ozone (EXP)

paracetamol (EXP)

paraquat (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (ISO)

phorbol 13-acetate 12-myristate (EXP)

pirinixic acid (ISO)

progesterone (EXP,ISO)

propiconazole (ISO)

raloxifene (EXP)

resiquimod (ISO)

resveratrol (EXP)

retinyl acetate (ISO)

rotenone (ISO)

simvastatin (ISO)

sodium arsenate (ISO)

sodium arsenite (EXP)

Soman (ISO)

sulfasalazine (EXP)

sunitinib (EXP)

temozolomide (EXP)

tetrachloromethane (ISO)

thimerosal (EXP)

topotecan (ISO)

triadimefon (ISO)

valproic acid (EXP)

vancomycin (ISO)

vinclozolin (ISO)

WIN 55212-2 (EXP)

zoledronic acid (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

canonical Wnt signaling pathway (IEA,ISO)

cell migration (IBA)

inflammatory response (IEA,ISO)

myoblast development (IEA,ISS)

odontogenesis (IEA,ISO)

positive regulation of exosomal secretion (IMP)

positive regulation of extracellular exosome assembly (IMP)

response to calcium ion (IEA,ISO)

response to cAMP (IEA,ISO)

response to glucocorticoid (IEA,ISO)

response to hydrogen peroxide (IEA,ISO)

response to organic substance (IEA,ISO)

response to toxic substance (IEA,ISO)

Sertoli cell development (IEA,ISO)

striated muscle cell development (IEP)

ureteric bud development (IEA,ISO)

wound healing (IEA,ISO)

Cellular Component

cell surface (IBA,IDA,IEA)

external side of plasma membrane (IEA)

extracellular exosome (HDA)

extracellular region (IEA)

Golgi lumen (TAS)

integral component of membrane (IEA)

integral component of plasma membrane (TAS)

lysosomal lumen (TAS)

membrane (IEA)

plasma membrane (TAS)

protein-containing complex (IEA,ISO)

Molecular Function

identical protein binding (IPI)

protein binding (IPI,ISO)

protein C-terminus binding (IPI)

Molecular Pathway Annotations Click to see Annotation Detail View

altered melanocortin system pathway (ISO)

cell-extracellular matrix signaling pathway (IEA)

malaria pathway (IEA)

melanocortin system pathway (ISO)

obesity pathway (ISO)

syndecan signaling pathway (EXP)

Phenotype Annotations Click to see Annotation Detail View

Human Phenotype

Prolonged QT interval (IAGP)

References

References - curated


1.	Bjornson Granqvist A, etal., Am J Physiol Renal Physiol. 2006 Oct;291(4):F722-30. Epub 2006 Apr 18.
2.	Carbone A, etal., Blood. 1998 Oct 1;92(7):2220-8.
3.	Carbone A, etal., Blood. 2001 Feb 1;97(3):744-51.
4.	Cortes V, etal., Liver Int. 2007 May;27(4):569-81.
5.	Endo C, etal., Coron Artery Dis. 1997 Mar-Apr;8(3-4):155-61.
6.	Gharagozlian S, etal., Eur J Nutr. 2006 Oct;45(7):369-75. Epub 2006 Jun 29.
7.	GOA_HUMAN data from the GO Consortium
8.	Mulivor AW and Lipowsky HH, Am J Physiol Heart Circ Physiol. 2004 May;286(5):H1672-80. Epub 2004 Jan 2.
9.	Olsson U, etal., Diabetes. 2001 Sep;50(9):2126-32.
10.	Pipeline to import KEGG annotations from KEGG into RGD
11.	Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13.	RGD automated import pipeline for gene-chemical interactions
14.	Seeley RJ, etal., Annu Rev Nutr 2004;24:133-49.
15.	Xiong Y, etal., Emerg Microbes Infect. 2020 Dec;9(1):761-770. doi: 10.1080/22221751.2020.1747363.

Additional References at PubMed

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PMID:31145753	PMID:31173301	PMID:31327090	PMID:31393853	PMID:31401177	PMID:31439945	PMID:31527615	PMID:31540870	PMID:31543446	PMID:31562188	PMID:31608721	PMID:31619273
PMID:31622242	PMID:31673058	PMID:31695352	PMID:31797997	PMID:31827001	PMID:31843086	PMID:31976021	PMID:31980649	PMID:32019488	PMID:32046458	PMID:32124938	PMID:32234892
PMID:32274708	PMID:32274735	PMID:32329146	PMID:32367652	PMID:32388727	PMID:32432735	PMID:32485953	PMID:32530114	PMID:32597227	PMID:32621878	PMID:32623935	PMID:32812461
PMID:32814053	PMID:32845501	PMID:32897364	PMID:32898003	PMID:32977498	PMID:32978505	PMID:33047116	PMID:33195694	PMID:33197893	PMID:33402482	PMID:33512430	PMID:33567345
PMID:33595099	PMID:33634586	PMID:33692439	PMID:33741039	PMID:33893369	PMID:33932696	PMID:33961781	PMID:34070901	PMID:34212822	PMID:34343643	PMID:34400721	PMID:34445387
PMID:34578329	PMID:34590569	PMID:34638892	PMID:34671356	PMID:34699846	PMID:34861818	PMID:34879094	PMID:34990821

Genomics

Candidate Gene Status

	SDC1 is a candidate Gene for QTL BW207_H
	SDC1 is a candidate Gene for QTL BW214_H

Comparative Map Data

SDC1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	20,200,797 - 20,225,475 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	2	20,200,797 - 20,225,433 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	20,400,558 - 20,425,236 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	20,264,039 - 20,288,675 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	2	20,322,187 - 20,346,555	NCBI
Celera	2	20,262,845 - 20,287,481 (-)	NCBI
Cytogenetic Map	2	p24.1	NCBI
HuRef	2	20,158,155 - 20,182,491 (-)	NCBI		HuRef
CHM1_1	2	20,329,922 - 20,354,554 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	20,234,345 - 20,259,019 (-)	NCBI

Sdc1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	8,821,396 - 8,843,716 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	12	8,821,323 - 8,843,715 (+)	Ensembl
GRCm38	12	8,771,396 - 8,793,716 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	8,771,323 - 8,793,715 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	8,778,202 - 8,800,494 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	12	8,797,404 - 8,819,696 (+)	NCBI			mm8
Celera	12	9,156,353 - 9,178,644 (+)	NCBI		Celera
Cytogenetic Map	12	A1.1	NCBI
cM Map	12	3.94	NCBI

Sdc1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	6	31,562,799 - 31,585,267 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	6	31,562,739 - 31,585,264 (+)	Ensembl
Rnor_6.0	6	33,885,576 - 33,908,038 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	33,885,495 - 33,908,016 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	43,667,444 - 43,689,903 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	32,253,352 - 32,275,812 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	6	32,256,304 - 32,278,764 (+)	NCBI
Celera	6	31,009,934 - 31,032,396 (+)	NCBI		Celera
Cytogenetic Map	6	q14	NCBI

Sdc1
(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_004955469	2,762,696 - 2,773,697 (-)	NCBI	ChiLan1.0	ChiLan1.0

SDC1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	2A	20,302,589 - 20,309,848 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	20,302,589 - 20,309,848 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	2A	20,187,249 - 20,211,567 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

SDC1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	15,220,906 - 15,243,974 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	15,222,094 - 15,243,890 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	15,185,971 - 15,208,368 (-)	NCBI
ROS_Cfam_1.0	17	15,373,622 - 15,395,937 (-)	NCBI
ROS_Cfam_1.0 Ensembl	17	15,373,628 - 15,395,946 (-)	Ensembl
UMICH_Zoey_3.1	17	15,227,151 - 15,249,524 (-)	NCBI
UNSW_CanFamBas_1.0	17	15,233,919 - 15,256,296 (-)	NCBI
UU_Cfam_GSD_1.0	17	15,265,578 - 15,287,885 (-)	NCBI

Sdc1
(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_024406292	59,639,887 - 59,661,785 (-)	NCBI
SpeTri2.0	NW_004936493	11,177,804 - 11,199,678 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SDC1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	117,987,557 - 118,011,885 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	117,987,585 - 118,011,886 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	125,988,758 - 126,027,188 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SDC1
(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	14	87,499,732 - 87,523,122 (+)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	14	87,499,574 - 87,525,026 (+)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666045	24,701,281 - 24,725,764 (-)	NCBI	Vero_WHO_p1.0

Sdc1
(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_004624738	2,920,154 - 2,938,035 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH67771

Human Assembly	Chr	Position (strand)	Source	JBrowse
GRCh37	2	20,400,635 - 20,400,814	UniSTS	GRCh37
Build 36	2	20,264,116 - 20,264,295	RGD	NCBI36
Celera	2	20,262,922 - 20,263,101	RGD
Cytogenetic Map	2	p24.1	UniSTS
HuRef	2	20,158,232 - 20,158,411	UniSTS
GeneMap99-GB4 RH Map	2	71.85	UniSTS
NCBI RH Map	2	99.6	UniSTS

RH16622

Human Assembly	Chr	Position (strand)	Source	JBrowse
GRCh37	2	20,401,666 - 20,401,849	UniSTS	GRCh37
Build 36	2	20,265,147 - 20,265,330	RGD	NCBI36
Celera	2	20,263,953 - 20,264,136	RGD
Cytogenetic Map	2	p24.1	UniSTS
HuRef	2	20,159,263 - 20,159,446	UniSTS
GeneMap99-GB4 RH Map	2	71.25	UniSTS
NCBI RH Map	2	99.3	UniSTS

RH17406

Human Assembly	Chr	Position (strand)	Source	JBrowse
GRCh37	2	20,401,309 - 20,401,466	UniSTS	GRCh37
Build 36	2	20,264,790 - 20,264,947	RGD	NCBI36
Celera	2	20,263,596 - 20,263,753	RGD
Cytogenetic Map	2	p24.1	UniSTS
HuRef	2	20,158,906 - 20,159,063	UniSTS
GeneMap99-GB4 RH Map	2	74.1	UniSTS
NCBI RH Map	2	99.6	UniSTS

miRNA Target Status

Confirmed Target Of

miRNA Gene	Mature miRNA	Method Name	Result Type	Data Type	Support Type	PMID
MIR10B	hsa-miR-10b-5p	Mirtarbase	external_info	Luciferase reporter assay	Functional MTI	22573479
MIR10B	hsa-miR-10b-5p	OncomiRDB	external_info	NA	NA	22573479

Predicted Target Of

	Summary Value
Count of predictions:	3543
Count of miRNA genes:	913
Interacting mature miRNAs:	1108
Transcripts:	ENST00000254351, ENST00000381150, ENST00000403076, ENST00000429035, ENST00000447124, ENST00000482879
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.

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

sensory system

visual system

adipose tissue

appendage

entire extraembryonic component

pharyngeal arch

High

Medium

952

1298

615

594

458

1595

171

384

710

1486

170

703

Low

1234

1550

419

667

1817

925

2482

726

1047

1206

Below cutoff

248

1395

603

896

1205

1059

100

865

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NG_050639	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001006946	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_002997	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_005262620	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_005262621	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_005262622	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC104792	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AJ551176	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK222739	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK299385	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK307313	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK311409	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK313974	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC008765	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BM785035	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BM910157	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB321970	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH471053	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CP068276	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	J05392	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	KT583891	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X60306	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	Z48199	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENST00000254351 ⟹ ENSP00000254351

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p13 Ensembl	2	20,200,797 - 20,225,130 (-)	Ensembl

RefSeq Acc Id:

ENST00000381150 ⟹ ENSP00000370542

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p13 Ensembl	2	20,200,799 - 20,225,433 (-)	Ensembl

RefSeq Acc Id:

ENST00000403076 ⟹ ENSP00000384613

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p13 Ensembl	2	20,201,486 - 20,225,096 (-)	Ensembl

RefSeq Acc Id:

ENST00000429035 ⟹ ENSP00000400773

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p13 Ensembl	2	20,203,818 - 20,224,280 (-)	Ensembl

RefSeq Acc Id:

ENST00000447124 ⟹ ENSP00000390201

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p13 Ensembl	2	20,204,152 - 20,225,094 (-)	Ensembl

RefSeq Acc Id:

ENST00000482879

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38.p13 Ensembl	2	20,204,002 - 20,223,388 (-)	Ensembl

RefSeq Acc Id:

NM_001006946 ⟹ NP_001006947

RefSeq Status:

REVIEWED

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,200,797 - 20,225,475 (-)	NCBI
GRCh37	2	20,400,558 - 20,425,194 (-)	ENTREZGENE
Build 36	2	20,264,039 - 20,288,675 (-)	NCBI Archive
HuRef	2	20,158,155 - 20,182,491 (-)	ENTREZGENE
CHM1_1	2	20,329,922 - 20,354,554 (-)	NCBI
T2T-CHM13v2.0	2	20,234,345 - 20,259,019 (-)	NCBI

Sequence:

show sequence

AGAGGGCGCTGCACACTCGCGCCCGAGGACTGCCTGCCCCCCTTCAGCCCCTCTCCCGGGCTGC
GCCTCCGCACTCCGGGCCCGGGCAGAAGGGGGTGCGCCTCGGCCCCACCACCCAGGGAGCAGCC
GAGCTGAAAGGCCGGGAACCGCGGCTTGCGGGGACCACAGCTCCCGAAAGCGACGTTCGGCCAC
CGGAGGAGCGGGAGCCAAGCAGGCGGAGCTCGGCGGGAGAGGTGCGGGCCGAATCCGAGCCGAG
CGGAGAGGAATCCGGCAGTAGAGAGCGGACTCCAGCCGGCGGACCCTGCAGCCCTCGCCTGGGA
CAGCGGCGCGCTGGGCAGGCGCCCAAGAGAGCATCGAGCAGCGGAACCCGCGAAGCCGGCCCGC
AGCCGCGACCCGCGCAGCCTGCCGCTCTCCCGCCGCCGGTCCGGGCAGCATGAGGCGCGCGGCG
CTCTGGCTCTGGCTGTGCGCGCTGGCGCTGAGCCTGCAGCCGGCCCTGCCGCAAATTGTGGCTA
CTAATTTGCCCCCTGAAGATCAAGATGGCTCTGGGGATGACTCTGACAACTTCTCCGGCTCAGG
TGCAGGTGCTTTGCAAGATATCACCTTGTCACAGCAGACCCCCTCCACTTGGAAGGACACGCAG
CTCCTGACGGCTATTCCCACGTCTCCAGAACCCACCGGCCTGGAGGCTACAGCTGCCTCCACCT
CCACCCTGCCGGCTGGAGAGGGGCCCAAGGAGGGAGAGGCTGTAGTCCTGCCAGAAGTGGAGCC
TGGCCTCACCGCCCGGGAGCAGGAGGCCACCCCCCGACCCAGGGAGACCACACAGCTCCCGACC
ACTCATCTGGCCTCAACGACCACAGCCACCACGGCCCAGGAGCCCGCCACCTCCCACCCCCACA
GGGACATGCAGCCTGGCCACCATGAGACCTCAACCCCTGCAGGACCCAGCCAAGCTGACCTTCA
CACTCCCCACACAGAGGATGGAGGTCCTTCTGCCACCGAGAGGGCTGCTGAGGATGGAGCCTCC
AGTCAGCTCCCAGCAGCAGAGGGCTCTGGGGAGCAGGACTTCACCTTTGAAACCTCGGGGGAGA
ATACGGCTGTAGTGGCCGTGGAGCCTGACCGCCGGAACCAGTCCCCAGTGGATCAGGGGGCCAC
GGGGGCCTCACAGGGCCTCCTGGACAGGAAAGAGGTGCTGGGAGGGGTCATTGCCGGAGGCCTC
GTGGGGCTCATCTTTGCTGTGTGCCTGGTGGGTTTCATGCTGTACCGCATGAAGAAGAAGGACG
AAGGCAGCTACTCCTTGGAGGAGCCGAAACAAGCCAACGGCGGGGCCTACCAGAAGCCCACCAA
ACAGGAGGAATTCTATGCCTGACGCGGGAGCCATGCGCCCCCTCCGCCCTGCCACTCACTAGGC
CCCCACTTGCCTCTTCCTTGAAGAACTGCAGGCCCTGGCCTCCCCTGCCACCAGGCCACCTCCC
CAGCATTCCAGCCCCTCTGGTCGCTCCTGCCCACGGAGTCGTGGGGTGTGCTGGGAGCTCCACT
CTGCTTCTCTGACTTCTGCCTGGAGACTTAGGGCACCAGGGGTTTCTCGCATAGGACCTTTCCA
CCACAGCCAGCACCTGGCATCGCACCATTCTGACTCGGTTTCTCCAAACTGAAGCAGCCTCTCC
CCAGGTCCAGCTCTGGAGGGGAGGGGGATCCGACTGCTTTGGACCTAAATGGCCTCATGTGGCT
GGAAGATCCTGCGGGTGGGGCTTGGGGCTCACACACCTGTAGCACTTACTGGTAGGACCAAGCA
TCTTGGGGGGGTGGCCGCTGAGTGGCAGGGGACAGGAGTCCACTTTGTTTCGTGGGGAGGTCTA
ATCTAGATATCGACTTGTTTTTGCACATGTTTCCTCTAGTTCTTTGTTCATAGCCCAGTAGACC
TTGTTACTTCTGAGGTAAGTTAAGTAAGTTGATTCGGTATCCCCCCATCTTGCTTCCCTAATCT
ATGGTCGGGAGACAGCATCAGGGTTAAGAAGACTTTTTTTTTTTTTTTTTAAACTAGGAGAACC
AAATCTGGAAGCCAAAATGTAGGCTTAGTTTGTGTGTTGTCTCTTGAGTTTGTCGCTCATGTGT
GCAACAGGGTATGGACTATCTGTCTGGTGGCCCCGTTTCTGGTGGTCTGTTGGCAGGCTGGCCA
GTCCAGGCTGCCGTGGGGCCGCCGCCTCTTTCAAGCAGTCGTGCCTGTGTCCATGCGCTCAGGG
CCATGCTGAGGCCTGGGCCGCTGCCACGTTGGAGAAGCCCGTGTGAGAAGTGAATGCTGGGACT
CAGCCTTCAGACAGAGAGGACTGTAGGGAGGGCGGCAGGGGCCTGGAGATCCTCCTGCAGACCA
CGCCCGTCCTGCCTGTGGCGCCGTCTCCAGGGGCTGCTTCCTCCTGGAAATTGACGAGGGGTGT
CTTGGGCAGAGCTGGCTCTGAGCGCCTCCATCCAAGGCCAGGTTCTCCGTTAGCTCCTGTGGCC
CCACCCTGGGCCCTGGGCTGGAATCAGGAATATTTTCCAAAGAGTGATAGTCTTTTGCTTTTGG
CAAAACTCTACTTAATCCAATGGGTTTTTCCCTGTACAGTAGATTTTCCAAATGTAATAAACTT
TAATATAAAGTAGTCCTGTGAATGCCACTGCCTTCGCTTCTTGCCTCTGTGCTGTGTGTGACGT
GACCGGACTTTTCTGCAAACACCAACATGTTGGGAAACTTGGCTCGAATCTCTGTGCCTTCGTC
TTTCCCATGGGGAGGGATTCTGGTTCCAGGGTCCCTCTGTGTATTTGCTTTTTTGTTTTGGCTG
AAATTCTCCTGGAGGTCGGTAGGTTCAGCCAAGGTTTTATAAGGCTGATGTCAATTTCTGTGTT
GCCAAGCTCCAAGCCCCATCTTCTAAATGGCAAAGGAAGGTGGATGGCCCCAGCACAGCTTGAC
CTGAGGCTGTGGTCACAGCGGAGGTGTGGAGCCGAGGCCTACCCCGCAGACACCTTGGACATCC
TCCTCCCACCCGGCTGCAGAGGCCAGAGGCCCCCAGCCCAGGGCTCCTGCACTTACTTGCTTAT
TTGACAACGTTTCAGCGACTCCGTTGGCCACTCCGAGAGGTGGGCCAGTCTGTGGATCAGAGAT
GCACCACCAAGCCAAGGGAACCTGTGTCCGGTATTCGATACTGCGACTTTCTGCCTGGAGTGTA
TGACTGCACATGACTCGGGGGTGGGGAAAGGGGTCGGCTGACCATGCTCATCTGCTGGTCCGTG
GGACGGTGCCCAAGCCAGAGGCTGGGTTCATTTGTGTAACGACAATAAACGGTACTTGTCATTT
CGGGCAA

hide sequence

RefSeq Acc Id:

NM_002997 ⟹ NP_002988

RefSeq Status:

REVIEWED

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,200,797 - 20,225,130 (-)	NCBI
GRCh37	2	20,400,558 - 20,425,194 (-)	ENTREZGENE
Build 36	2	20,264,039 - 20,288,408 (-)	NCBI Archive
HuRef	2	20,158,155 - 20,182,491 (-)	ENTREZGENE
CHM1_1	2	20,329,922 - 20,354,287 (-)	NCBI
T2T-CHM13v2.0	2	20,234,345 - 20,258,674 (-)	NCBI

Sequence:

show sequence

AGTTTTTGCAACGGCTAAGGAAGGGCCTGTGGGTTTATTATAAGGCGGAGCTCGGCGGGAGAGG
TGCGGGCCGAATCCGAGCCGAGCGGAGAGGAATCCGGCAGTAGAGAGCGGACTCCAGCCGGCGG
ACCCTGCAGCCCTCGCCTGGGACAGCGGCGCGCTGGGCAGGCGCCCAAGAGAGCATCGAGCAGC
GGAACCCGCGAAGCCGGCCCGCAGCCGCGACCCGCGCAGCCTGCCGCTCTCCCGCCGCCGGTCC
GGGCAGCATGAGGCGCGCGGCGCTCTGGCTCTGGCTGTGCGCGCTGGCGCTGAGCCTGCAGCCG
GCCCTGCCGCAAATTGTGGCTACTAATTTGCCCCCTGAAGATCAAGATGGCTCTGGGGATGACT
CTGACAACTTCTCCGGCTCAGGTGCAGGTGCTTTGCAAGATATCACCTTGTCACAGCAGACCCC
CTCCACTTGGAAGGACACGCAGCTCCTGACGGCTATTCCCACGTCTCCAGAACCCACCGGCCTG
GAGGCTACAGCTGCCTCCACCTCCACCCTGCCGGCTGGAGAGGGGCCCAAGGAGGGAGAGGCTG
TAGTCCTGCCAGAAGTGGAGCCTGGCCTCACCGCCCGGGAGCAGGAGGCCACCCCCCGACCCAG
GGAGACCACACAGCTCCCGACCACTCATCTGGCCTCAACGACCACAGCCACCACGGCCCAGGAG
CCCGCCACCTCCCACCCCCACAGGGACATGCAGCCTGGCCACCATGAGACCTCAACCCCTGCAG
GACCCAGCCAAGCTGACCTTCACACTCCCCACACAGAGGATGGAGGTCCTTCTGCCACCGAGAG
GGCTGCTGAGGATGGAGCCTCCAGTCAGCTCCCAGCAGCAGAGGGCTCTGGGGAGCAGGACTTC
ACCTTTGAAACCTCGGGGGAGAATACGGCTGTAGTGGCCGTGGAGCCTGACCGCCGGAACCAGT
CCCCAGTGGATCAGGGGGCCACGGGGGCCTCACAGGGCCTCCTGGACAGGAAAGAGGTGCTGGG
AGGGGTCATTGCCGGAGGCCTCGTGGGGCTCATCTTTGCTGTGTGCCTGGTGGGTTTCATGCTG
TACCGCATGAAGAAGAAGGACGAAGGCAGCTACTCCTTGGAGGAGCCGAAACAAGCCAACGGCG
GGGCCTACCAGAAGCCCACCAAACAGGAGGAATTCTATGCCTGACGCGGGAGCCATGCGCCCCC
TCCGCCCTGCCACTCACTAGGCCCCCACTTGCCTCTTCCTTGAAGAACTGCAGGCCCTGGCCTC
CCCTGCCACCAGGCCACCTCCCCAGCATTCCAGCCCCTCTGGTCGCTCCTGCCCACGGAGTCGT
GGGGTGTGCTGGGAGCTCCACTCTGCTTCTCTGACTTCTGCCTGGAGACTTAGGGCACCAGGGG
TTTCTCGCATAGGACCTTTCCACCACAGCCAGCACCTGGCATCGCACCATTCTGACTCGGTTTC
TCCAAACTGAAGCAGCCTCTCCCCAGGTCCAGCTCTGGAGGGGAGGGGGATCCGACTGCTTTGG
ACCTAAATGGCCTCATGTGGCTGGAAGATCCTGCGGGTGGGGCTTGGGGCTCACACACCTGTAG
CACTTACTGGTAGGACCAAGCATCTTGGGGGGGTGGCCGCTGAGTGGCAGGGGACAGGAGTCCA
CTTTGTTTCGTGGGGAGGTCTAATCTAGATATCGACTTGTTTTTGCACATGTTTCCTCTAGTTC
TTTGTTCATAGCCCAGTAGACCTTGTTACTTCTGAGGTAAGTTAAGTAAGTTGATTCGGTATCC
CCCCATCTTGCTTCCCTAATCTATGGTCGGGAGACAGCATCAGGGTTAAGAAGACTTTTTTTTT
TTTTTTTTAAACTAGGAGAACCAAATCTGGAAGCCAAAATGTAGGCTTAGTTTGTGTGTTGTCT
CTTGAGTTTGTCGCTCATGTGTGCAACAGGGTATGGACTATCTGTCTGGTGGCCCCGTTTCTGG
TGGTCTGTTGGCAGGCTGGCCAGTCCAGGCTGCCGTGGGGCCGCCGCCTCTTTCAAGCAGTCGT
GCCTGTGTCCATGCGCTCAGGGCCATGCTGAGGCCTGGGCCGCTGCCACGTTGGAGAAGCCCGT
GTGAGAAGTGAATGCTGGGACTCAGCCTTCAGACAGAGAGGACTGTAGGGAGGGCGGCAGGGGC
CTGGAGATCCTCCTGCAGACCACGCCCGTCCTGCCTGTGGCGCCGTCTCCAGGGGCTGCTTCCT
CCTGGAAATTGACGAGGGGTGTCTTGGGCAGAGCTGGCTCTGAGCGCCTCCATCCAAGGCCAGG
TTCTCCGTTAGCTCCTGTGGCCCCACCCTGGGCCCTGGGCTGGAATCAGGAATATTTTCCAAAG
AGTGATAGTCTTTTGCTTTTGGCAAAACTCTACTTAATCCAATGGGTTTTTCCCTGTACAGTAG
ATTTTCCAAATGTAATAAACTTTAATATAAAGTAGTCCTGTGAATGCCACTGCCTTCGCTTCTT
GCCTCTGTGCTGTGTGTGACGTGACCGGACTTTTCTGCAAACACCAACATGTTGGGAAACTTGG
CTCGAATCTCTGTGCCTTCGTCTTTCCCATGGGGAGGGATTCTGGTTCCAGGGTCCCTCTGTGT
ATTTGCTTTTTTGTTTTGGCTGAAATTCTCCTGGAGGTCGGTAGGTTCAGCCAAGGTTTTATAA
GGCTGATGTCAATTTCTGTGTTGCCAAGCTCCAAGCCCCATCTTCTAAATGGCAAAGGAAGGTG
GATGGCCCCAGCACAGCTTGACCTGAGGCTGTGGTCACAGCGGAGGTGTGGAGCCGAGGCCTAC
CCCGCAGACACCTTGGACATCCTCCTCCCACCCGGCTGCAGAGGCCAGAGGCCCCCAGCCCAGG
GCTCCTGCACTTACTTGCTTATTTGACAACGTTTCAGCGACTCCGTTGGCCACTCCGAGAGGTG
GGCCAGTCTGTGGATCAGAGATGCACCACCAAGCCAAGGGAACCTGTGTCCGGTATTCGATACT
GCGACTTTCTGCCTGGAGTGTATGACTGCACATGACTCGGGGGTGGGGAAAGGGGTCGGCTGAC
CATGCTCATCTGCTGGTCCGTGGGACGGTGCCCAAGCCAGAGGCTGGGTTCATTTGTGTAACGA
CAATAAACGGTACTTGTCATTTCGGGCAA

hide sequence

RefSeq Acc Id:

XM_005262620 ⟹ XP_005262677

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,200,797 - 20,208,162 (-)	NCBI
GRCh37	2	20,400,558 - 20,425,194 (-)	NCBI

Sequence:

show sequence

GTTGCCTCATTGTTGAATGGAGCATGGATCCAATGGTTCTAGCTTCTGCTGAAAGATTCGGCAC
TCTACAATGCAGCAGAGGCTCGTGGGGTCGAAGTGCCAGTGCCTTGCCCCATCCCTGCCCCATC
TTGAGCTTTCTCTTGGGGGAGGCGGTGCAGCAGGAGAGGGCAGGGCAGAGTCCTTGGATGAGAG
TGAAGCCATGATCCCACAAATTGTGGCTACTAATTTGCCCCCTGAAGATCAAGATGGCTCTGGG
GATGACTCTGACAACTTCTCCGGCTCAGGTGCAGGTGCTTTGCAAGATATCACCTTGTCACAGC
AGACCCCCTCCACTTGGAAGGACACGCAGCTCCTGACGGCTATTCCCACGTCTCCAGAACCCAC
CGGCCTGGAGGCTACAGCTGCCTCCACCTCCACCCTGCCGGCTGGAGAGGGGCCCAAGGAGGGA
GAGGCTGTAGTCCTGCCAGAAGTGGAGCCTGGCCTCACCGCCCGGGAGCAGGAGGCCACCCCCC
GACCCAGGGAGACCACACAGCTCCCGACCACTCATCTGGCCTCAACGACCACAGCCACCACGGC
CCAGGAGCCCGCCACCTCCCACCCCCACAGGGACATGCAGCCTGGCCACCATGAGACCTCAACC
CCTGCAGGACCCAGCCAAGCTGACCTTCACACTCCCCACACAGAGGATGGAGGTCCTTCTGCCA
CCGAGAGGGCTGCTGAGGATGGAGCCTCCAGTCAGCTCCCAGCAGCAGAGGGCTCTGGGGAGCA
GGACTTCACCTTTGAAACCTCGGGGGAGAATACGGCTGTAGTGGCCGTGGAGCCTGACCGCCGG
AACCAGTCCCCAGTGGATCAGGGGGCCACGGGGGCCTCACAGGGCCTCCTGGACAGGAAAGAGG
TGCTGGGAGGGGTCATTGCCGGAGGCCTCGTGGGGCTCATCTTTGCTGTGTGCCTGGTGGGTTT
CATGCTGTACCGCATGAAGAAGAAGGACGAAGGCAGCTACTCCTTGGAGGAGCCGAAACAAGCC
AACGGCGGGGCCTACCAGAAGCCCACCAAACAGGAGGAATTCTATGCCTGACGCGGGAGCCATG
CGCCCCCTCCGCCCTGCCACTCACTAGGCCCCCACTTGCCTCTTCCTTGAAGAACTGCAGGCCC
TGGCCTCCCCTGCCACCAGGCCACCTCCCCAGCATTCCAGCCCCTCTGGTCGCTCCTGCCCACG
GAGTCGTGGGGTGTGCTGGGAGCTCCACTCTGCTTCTCTGACTTCTGCCTGGAGACTTAGGGCA
CCAGGGGTTTCTCGCATAGGACCTTTCCACCACAGCCAGCACCTGGCATCGCACCATTCTGACT
CGGTTTCTCCAAACTGAAGCAGCCTCTCCCCAGGTCCAGCTCTGGAGGGGAGGGGGATCCGACT
GCTTTGGACCTAAATGGCCTCATGTGGCTGGAAGATCCTGCGGGTGGGGCTTGGGGCTCACACA
CCTGTAGCACTTACTGGTAGGACCAAGCATCTTGGGGGGGTGGCCGCTGAGTGGCAGGGGACAG
GAGTCCACTTTGTTTCGTGGGGAGGTCTAATCTAGATATCGACTTGTTTTTGCACATGTTTCCT
CTAGTTCTTTGTTCATAGCCCAGTAGACCTTGTTACTTCTGAGGTAAGTTAAGTAAGTTGATTC
GGTATCCCCCCATCTTGCTTCCCTAATCTATGGTCGGGAGACAGCATCAGGGTTAAGAAGACTT
TTTTTTTTTTTTTTTAAACTAGGAGAACCAAATCTGGAAGCCAAAATGTAGGCTTAGTTTGTGT
GTTGTCTCTTGAGTTTGTCGCTCATGTGTGCAACAGGGTATGGACTATCTGTCTGGTGGCCCCG
TTTCTGGTGGTCTGTTGGCAGGCTGGCCAGTCCAGGCTGCCGTGGGGCCGCCGCCTCTTTCAAG
CAGTCGTGCCTGTGTCCATGCGCTCAGGGCCATGCTGAGGCCTGGGCCGCTGCCACGTTGGAGA
AGCCCGTGTGAGAAGTGAATGCTGGGACTCAGCCTTCAGACAGAGAGGACTGTAGGGAGGGCGG
CAGGGGCCTGGAGATCCTCCTGCAGACCACGCCCGTCCTGCCTGTGGCGCCGTCTCCAGGGGCT
GCTTCCTCCTGGAAATTGACGAGGGGTGTCTTGGGCAGAGCTGGCTCTGAGCGCCTCCATCCAA
GGCCAGGTTCTCCGTTAGCTCCTGTGGCCCCACCCTGGGCCCTGGGCTGGAATCAGGAATATTT
TCCAAAGAGTGATAGTCTTTTGCTTTTGGCAAAACTCTACTTAATCCAATGGGTTTTTCCCTGT
ACAGTAGATTTTCCAAATGTAATAAACTTTAATATAAAGTAGTCCTGTGAATGCCACTGCCTTC
GCTTCTTGCCTCTGTGCTGTGTGTGACGTGACCGGACTTTTCTGCAAACACCAACATGTTGGGA
AACTTGGCTCGAATCTCTGTGCCTTCGTCTTTCCCATGGGGAGGGATTCTGGTTCCAGGGTCCC
TCTGTGTATTTGCTTTTTTGTTTTGGCTGAAATTCTCCTGGAGGTCGGTAGGTTCAGCCAAGGT
TTTATAAGGCTGATGTCAATTTCTGTGTTGCCAAGCTCCAAGCCCCATCTTCTAAATGGCAAAG
GAAGGTGGATGGCCCCAGCACAGCTTGACCTGAGGCTGTGGTCACAGCGGAGGTGTGGAGCCGA
GGCCTACCCCGCAGACACCTTGGACATCCTCCTCCCACCCGGCTGCAGAGGCCAGAGGCCCCCA
GCCCAGGGCTCCTGCACTTACTTGCTTATTTGACAACGTTTCAGCGACTCCGTTGGCCACTCCG
AGAGGTGGGCCAGTCTGTGGATCAGAGATGCACCACCAAGCCAAGGGAACCTGTGTCCGGTATT
CGATACTGCGACTTTCTGCCTGGAGTGTATGACTGCACATGACTCGGGGGTGGGGAAAGGGGTC
GGCTGACCATGCTCATCTGCTGGTCCGTGGGACGGTGCCCAAGCCAGAGGCTGGGTTCATTTGT
GTAACGACAATAAACGGTACTTGTCATTTCGGGCAA

hide sequence

RefSeq Acc Id:

XM_005262621 ⟹ XP_005262678

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,200,797 - 20,207,466 (-)	NCBI
GRCh37	2	20,400,558 - 20,425,194 (-)	NCBI

Sequence:

show sequence

GGGATTACAGGCGTGAGCCACTGCACCAGTCAAGTCAATGACTGTTTATTGTAGATGGGCCATG
GTGGACTGTGACTGTTCATTGCAGCAAATTGTGGCTACTAATTTGCCCCCTGAAGATCAAGATG
GCTCTGGGGATGACTCTGACAACTTCTCCGGCTCAGGTGCAGGTGCTTTGCAAGATATCACCTT
GTCACAGCAGACCCCCTCCACTTGGAAGGACACGCAGCTCCTGACGGCTATTCCCACGTCTCCA
GAACCCACCGGCCTGGAGGCTACAGCTGCCTCCACCTCCACCCTGCCGGCTGGAGAGGGGCCCA
AGGAGGGAGAGGCTGTAGTCCTGCCAGAAGTGGAGCCTGGCCTCACCGCCCGGGAGCAGGAGGC
CACCCCCCGACCCAGGGAGACCACACAGCTCCCGACCACTCATCTGGCCTCAACGACCACAGCC
ACCACGGCCCAGGAGCCCGCCACCTCCCACCCCCACAGGGACATGCAGCCTGGCCACCATGAGA
CCTCAACCCCTGCAGGACCCAGCCAAGCTGACCTTCACACTCCCCACACAGAGGATGGAGGTCC
TTCTGCCACCGAGAGGGCTGCTGAGGATGGAGCCTCCAGTCAGCTCCCAGCAGCAGAGGGCTCT
GGGGAGCAGGACTTCACCTTTGAAACCTCGGGGGAGAATACGGCTGTAGTGGCCGTGGAGCCTG
ACCGCCGGAACCAGTCCCCAGTGGATCAGGGGGCCACGGGGGCCTCACAGGGCCTCCTGGACAG
GAAAGAGGTGCTGGGAGGGGTCATTGCCGGAGGCCTCGTGGGGCTCATCTTTGCTGTGTGCCTG
GTGGGTTTCATGCTGTACCGCATGAAGAAGAAGGACGAAGGCAGCTACTCCTTGGAGGAGCCGA
AACAAGCCAACGGCGGGGCCTACCAGAAGCCCACCAAACAGGAGGAATTCTATGCCTGACGCGG
GAGCCATGCGCCCCCTCCGCCCTGCCACTCACTAGGCCCCCACTTGCCTCTTCCTTGAAGAACT
GCAGGCCCTGGCCTCCCCTGCCACCAGGCCACCTCCCCAGCATTCCAGCCCCTCTGGTCGCTCC
TGCCCACGGAGTCGTGGGGTGTGCTGGGAGCTCCACTCTGCTTCTCTGACTTCTGCCTGGAGAC
TTAGGGCACCAGGGGTTTCTCGCATAGGACCTTTCCACCACAGCCAGCACCTGGCATCGCACCA
TTCTGACTCGGTTTCTCCAAACTGAAGCAGCCTCTCCCCAGGTCCAGCTCTGGAGGGGAGGGGG
ATCCGACTGCTTTGGACCTAAATGGCCTCATGTGGCTGGAAGATCCTGCGGGTGGGGCTTGGGG
CTCACACACCTGTAGCACTTACTGGTAGGACCAAGCATCTTGGGGGGGTGGCCGCTGAGTGGCA
GGGGACAGGAGTCCACTTTGTTTCGTGGGGAGGTCTAATCTAGATATCGACTTGTTTTTGCACA
TGTTTCCTCTAGTTCTTTGTTCATAGCCCAGTAGACCTTGTTACTTCTGAGGTAAGTTAAGTAA
GTTGATTCGGTATCCCCCCATCTTGCTTCCCTAATCTATGGTCGGGAGACAGCATCAGGGTTAA
GAAGACTTTTTTTTTTTTTTTTTAAACTAGGAGAACCAAATCTGGAAGCCAAAATGTAGGCTTA
GTTTGTGTGTTGTCTCTTGAGTTTGTCGCTCATGTGTGCAACAGGGTATGGACTATCTGTCTGG
TGGCCCCGTTTCTGGTGGTCTGTTGGCAGGCTGGCCAGTCCAGGCTGCCGTGGGGCCGCCGCCT
CTTTCAAGCAGTCGTGCCTGTGTCCATGCGCTCAGGGCCATGCTGAGGCCTGGGCCGCTGCCAC
GTTGGAGAAGCCCGTGTGAGAAGTGAATGCTGGGACTCAGCCTTCAGACAGAGAGGACTGTAGG
GAGGGCGGCAGGGGCCTGGAGATCCTCCTGCAGACCACGCCCGTCCTGCCTGTGGCGCCGTCTC
CAGGGGCTGCTTCCTCCTGGAAATTGACGAGGGGTGTCTTGGGCAGAGCTGGCTCTGAGCGCCT
CCATCCAAGGCCAGGTTCTCCGTTAGCTCCTGTGGCCCCACCCTGGGCCCTGGGCTGGAATCAG
GAATATTTTCCAAAGAGTGATAGTCTTTTGCTTTTGGCAAAACTCTACTTAATCCAATGGGTTT
TTCCCTGTACAGTAGATTTTCCAAATGTAATAAACTTTAATATAAAGTAGTCCTGTGAATGCCA
CTGCCTTCGCTTCTTGCCTCTGTGCTGTGTGTGACGTGACCGGACTTTTCTGCAAACACCAACA
TGTTGGGAAACTTGGCTCGAATCTCTGTGCCTTCGTCTTTCCCATGGGGAGGGATTCTGGTTCC
AGGGTCCCTCTGTGTATTTGCTTTTTTGTTTTGGCTGAAATTCTCCTGGAGGTCGGTAGGTTCA
GCCAAGGTTTTATAAGGCTGATGTCAATTTCTGTGTTGCCAAGCTCCAAGCCCCATCTTCTAAA
TGGCAAAGGAAGGTGGATGGCCCCAGCACAGCTTGACCTGAGGCTGTGGTCACAGCGGAGGTGT
GGAGCCGAGGCCTACCCCGCAGACACCTTGGACATCCTCCTCCCACCCGGCTGCAGAGGCCAGA
GGCCCCCAGCCCAGGGCTCCTGCACTTACTTGCTTATTTGACAACGTTTCAGCGACTCCGTTGG
CCACTCCGAGAGGTGGGCCAGTCTGTGGATCAGAGATGCACCACCAAGCCAAGGGAACCTGTGT
CCGGTATTCGATACTGCGACTTTCTGCCTGGAGTGTATGACTGCACATGACTCGGGGGTGGGGA
AAGGGGTCGGCTGACCATGCTCATCTGCTGGTCCGTGGGACGGTGCCCAAGCCAGAGGCTGGGT
TCATTTGTGTAACGACAATAAACGGTACTTGTCATTTCGGGCAA

hide sequence

RefSeq Acc Id:

XM_005262622 ⟹ XP_005262679

RefSeq Status:

Type:

CODING

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,200,797 - 20,223,458 (-)	NCBI
GRCh37	2	20,400,558 - 20,425,194 (-)	NCBI

Sequence:

show sequence

TACAGAGTCTGTCTCATGGGAGATGAGCAAATTGTGGCTACTAATTTGCCCCCTGAAGATCAAG
ATGGCTCTGGGGATGACTCTGACAACTTCTCCGGCTCAGGTGCAGGTGCTTTGCAAGATATCAC
CTTGTCACAGCAGACCCCCTCCACTTGGAAGGACACGCAGCTCCTGACGGCTATTCCCACGTCT
CCAGAACCCACCGGCCTGGAGGCTACAGCTGCCTCCACCTCCACCCTGCCGGCTGGAGAGGGGC
CCAAGGAGGGAGAGGCTGTAGTCCTGCCAGAAGTGGAGCCTGGCCTCACCGCCCGGGAGCAGGA
GGCCACCCCCCGACCCAGGGAGACCACACAGCTCCCGACCACTCATCTGGCCTCAACGACCACA
GCCACCACGGCCCAGGAGCCCGCCACCTCCCACCCCCACAGGGACATGCAGCCTGGCCACCATG
AGACCTCAACCCCTGCAGGACCCAGCCAAGCTGACCTTCACACTCCCCACACAGAGGATGGAGG
TCCTTCTGCCACCGAGAGGGCTGCTGAGGATGGAGCCTCCAGTCAGCTCCCAGCAGCAGAGGGC
TCTGGGGAGCAGGACTTCACCTTTGAAACCTCGGGGGAGAATACGGCTGTAGTGGCCGTGGAGC
CTGACCGCCGGAACCAGTCCCCAGTGGATCAGGGGGCCACGGGGGCCTCACAGGGCCTCCTGGA
CAGGAAAGAGGTGCTGGGAGGGGTCATTGCCGGAGGCCTCGTGGGGCTCATCTTTGCTGTGTGC
CTGGTGGGTTTCATGCTGTACCGCATGAAGAAGAAGGACGAAGGCAGCTACTCCTTGGAGGAGC
CGAAACAAGCCAACGGCGGGGCCTACCAGAAGCCCACCAAACAGGAGGAATTCTATGCCTGACG
CGGGAGCCATGCGCCCCCTCCGCCCTGCCACTCACTAGGCCCCCACTTGCCTCTTCCTTGAAGA
ACTGCAGGCCCTGGCCTCCCCTGCCACCAGGCCACCTCCCCAGCATTCCAGCCCCTCTGGTCGC
TCCTGCCCACGGAGTCGTGGGGTGTGCTGGGAGCTCCACTCTGCTTCTCTGACTTCTGCCTGGA
GACTTAGGGCACCAGGGGTTTCTCGCATAGGACCTTTCCACCACAGCCAGCACCTGGCATCGCA
CCATTCTGACTCGGTTTCTCCAAACTGAAGCAGCCTCTCCCCAGGTCCAGCTCTGGAGGGGAGG
GGGATCCGACTGCTTTGGACCTAAATGGCCTCATGTGGCTGGAAGATCCTGCGGGTGGGGCTTG
GGGCTCACACACCTGTAGCACTTACTGGTAGGACCAAGCATCTTGGGGGGGTGGCCGCTGAGTG
GCAGGGGACAGGAGTCCACTTTGTTTCGTGGGGAGGTCTAATCTAGATATCGACTTGTTTTTGC
ACATGTTTCCTCTAGTTCTTTGTTCATAGCCCAGTAGACCTTGTTACTTCTGAGGTAAGTTAAG
TAAGTTGATTCGGTATCCCCCCATCTTGCTTCCCTAATCTATGGTCGGGAGACAGCATCAGGGT
TAAGAAGACTTTTTTTTTTTTTTTTTAAACTAGGAGAACCAAATCTGGAAGCCAAAATGTAGGC
TTAGTTTGTGTGTTGTCTCTTGAGTTTGTCGCTCATGTGTGCAACAGGGTATGGACTATCTGTC
TGGTGGCCCCGTTTCTGGTGGTCTGTTGGCAGGCTGGCCAGTCCAGGCTGCCGTGGGGCCGCCG
CCTCTTTCAAGCAGTCGTGCCTGTGTCCATGCGCTCAGGGCCATGCTGAGGCCTGGGCCGCTGC
CACGTTGGAGAAGCCCGTGTGAGAAGTGAATGCTGGGACTCAGCCTTCAGACAGAGAGGACTGT
AGGGAGGGCGGCAGGGGCCTGGAGATCCTCCTGCAGACCACGCCCGTCCTGCCTGTGGCGCCGT
CTCCAGGGGCTGCTTCCTCCTGGAAATTGACGAGGGGTGTCTTGGGCAGAGCTGGCTCTGAGCG
CCTCCATCCAAGGCCAGGTTCTCCGTTAGCTCCTGTGGCCCCACCCTGGGCCCTGGGCTGGAAT
CAGGAATATTTTCCAAAGAGTGATAGTCTTTTGCTTTTGGCAAAACTCTACTTAATCCAATGGG
TTTTTCCCTGTACAGTAGATTTTCCAAATGTAATAAACTTTAATATAAAGTAGTCCTGTGAATG
CCACTGCCTTCGCTTCTTGCCTCTGTGCTGTGTGTGACGTGACCGGACTTTTCTGCAAACACCA
ACATGTTGGGAAACTTGGCTCGAATCTCTGTGCCTTCGTCTTTCCCATGGGGAGGGATTCTGGT
TCCAGGGTCCCTCTGTGTATTTGCTTTTTTGTTTTGGCTGAAATTCTCCTGGAGGTCGGTAGGT
TCAGCCAAGGTTTTATAAGGCTGATGTCAATTTCTGTGTTGCCAAGCTCCAAGCCCCATCTTCT
AAATGGCAAAGGAAGGTGGATGGCCCCAGCACAGCTTGACCTGAGGCTGTGGTCACAGCGGAGG
TGTGGAGCCGAGGCCTACCCCGCAGACACCTTGGACATCCTCCTCCCACCCGGCTGCAGAGGCC
AGAGGCCCCCAGCCCAGGGCTCCTGCACTTACTTGCTTATTTGACAACGTTTCAGCGACTCCGT
TGGCCACTCCGAGAGGTGGGCCAGTCTGTGGATCAGAGATGCACCACCAAGCCAAGGGAACCTG
TGTCCGGTATTCGATACTGCGACTTTCTGCCTGGAGTGTATGACTGCACATGACTCGGGGGTGG
GGAAAGGGGTCGGCTGACCATGCTCATCTGCTGGTCCGTGGGACGGTGCCCAAGCCAGAGGCTG
GGTTCATTTGTGTAACGACAATAAACGGTACTTGTCATTTCGGGCAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001006947	(Get FASTA)	NCBI Sequence Viewer
	NP_002988	(Get FASTA)	NCBI Sequence Viewer
	XP_005262677	(Get FASTA)	NCBI Sequence Viewer
	XP_005262678	(Get FASTA)	NCBI Sequence Viewer
	XP_005262679	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA60605	(Get FASTA)	NCBI Sequence Viewer
	AAH08765	(Get FASTA)	NCBI Sequence Viewer
	AAX93151	(Get FASTA)	NCBI Sequence Viewer
	BAD96459	(Get FASTA)	NCBI Sequence Viewer
	BAG61371	(Get FASTA)	NCBI Sequence Viewer
	CAA42851	(Get FASTA)	NCBI Sequence Viewer
	CAA88235	(Get FASTA)	NCBI Sequence Viewer
	CAD80245	(Get FASTA)	NCBI Sequence Viewer
	EAX00828	(Get FASTA)	NCBI Sequence Viewer
	EAX00829	(Get FASTA)	NCBI Sequence Viewer
	EAX00830	(Get FASTA)	NCBI Sequence Viewer
	EAX00831	(Get FASTA)	NCBI Sequence Viewer
	P18827	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001006947 ⟸ NM_001006946

- Peptide Label:

precursor

- Sequence:

show sequence

MRRAALWLWLCALALSLQPALPQIVATNLPPEDQDGSGDDSDNFSGSGAGALQDITLSQQTPST
WKDTQLLTAIPTSPEPTGLEATAASTSTLPAGEGPKEGEAVVLPEVEPGLTAREQEATPRPRET
TQLPTTHQASTTTATTAQEPATSHPHRDMQPGHHETSTPAGPSQADLHTPHTEDGGPSATERAA
EDGASSQLPAAEGSGEQDFTFETSGENTAVVAVEPDRRNQSPVDQGATGASQGLLDRKEVLGGV
IAGGLVGLIFAVCLVGFMLYRMKKKDEGSYSLEEPKQANGGAYQKPTKQEEFYA

hide sequence

RefSeq Acc Id:

NP_002988 ⟸ NM_002997

- Peptide Label:

precursor

- Sequence:

show sequence

MRRAALWLWLCALALSLQPALPQIVATNLPPEDQDGSGDDSDNFSGSGAGALQDITLSQQTPST
WKDTQLLTAIPTSPEPTGLEATAASTSTLPAGEGPKEGEAVVLPEVEPGLTAREQEATPRPRET
TQLPTTHQASTTTATTAQEPATSHPHRDMQPGHHETSTPAGPSQADLHTPHTEDGGPSATERAA
EDGASSQLPAAEGSGEQDFTFETSGENTAVVAVEPDRRNQSPVDQGATGASQGLLDRKEVLGGV
IAGGLVGLIFAVCLVGFMLYRMKKKDEGSYSLEEPKQANGGAYQKPTKQEEFYA

hide sequence

RefSeq Acc Id:

XP_005262679 ⟸ XM_005262622

- Peptide Label:

isoform X3

- Sequence:

show sequence

MGDEQIVATNLPPEDQDGSGDDSDNFSGSGAGALQDITLSQQTPSTWKDTQLLTAIPTSPEPTG
LEATAASTSTLPAGEGPKEGEAVVLPEVEPGLTAREQEATPRPRETTQLPTTHLASTTTATTAQ
EPATSHPHRDMQPGHHETSTPAGPSQADLHTPHTEDGGPSATERAAEDGASSQLPAAEGSGEQD
FTFETSGENTAVVAVEPDRRNQSPVDQGATGASQGLLDRKEVLGGVIAGGLVGLIFAVCLVGFM
LYRMKKKDEGSYSLEEPKQANGGAYQKPTKQEEFYA

hide sequence

RefSeq Acc Id:

XP_005262677 ⟸ XM_005262620

- Peptide Label:

isoform X1

- Sequence:

show sequence

MQQRLVGSKCQCLAPSLPHLELSLGGGGAAGEGRAESLDESEAMIPQIVATNLPPEDQDGSGDD
SDNFSGSGAGALQDITLSQQTPSTWKDTQLLTAIPTSPEPTGLEATAASTSTLPAGEGPKEGEA
VVLPEVEPGLTAREQEATPRPRETTQLPTTHLASTTTATTAQEPATSHPHRDMQPGHHETSTPA
GPSQADLHTPHTEDGGPSATERAAEDGASSQLPAAEGSGEQDFTFETSGENTAVVAVEPDRRNQ
SPVDQGATGASQGLLDRKEVLGGVIAGGLVGLIFAVCLVGFMLYRMKKKDEGSYSLEEPKQANG
GAYQKPTKQEEFYA

hide sequence

RefSeq Acc Id:

XP_005262678 ⟸ XM_005262621

- Peptide Label:

isoform X2

- Sequence:

show sequence

MTVYCRWAMVDCDCSLQQIVATNLPPEDQDGSGDDSDNFSGSGAGALQDITLSQQTPSTWKDTQ
LLTAIPTSPEPTGLEATAASTSTLPAGEGPKEGEAVVLPEVEPGLTAREQEATPRPRETTQLPT
THLASTTTATTAQEPATSHPHRDMQPGHHETSTPAGPSQADLHTPHTEDGGPSATERAAEDGAS
SQLPAAEGSGEQDFTFETSGENTAVVAVEPDRRNQSPVDQGATGASQGLLDRKEVLGGVIAGGL
VGLIFAVCLVGFMLYRMKKKDEGSYSLEEPKQANGGAYQKPTKQEEFYA

hide sequence

RefSeq Acc Id:

ENSP00000254351 ⟸ ENST00000254351

RefSeq Acc Id:

ENSP00000400773 ⟸ ENST00000429035

RefSeq Acc Id:

ENSP00000384613 ⟸ ENST00000403076

RefSeq Acc Id:

ENSP00000390201 ⟸ ENST00000447124

RefSeq Acc Id:

ENSP00000370542 ⟸ ENST00000381150

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P18827-F1-model_v2	AlphaFold	P18827	1-310	view protein structure

Promoters

RGD ID:

6859716

Promoter ID:

EPDNEW_H3022

Type:

initiation region

Name:

SDC1_1

Description:

syndecan 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Alternative Promoters:

null; see alsoEPDNEW_H3023

Experiment Methods:

Single-end sequencing.

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,225,130 - 20,225,190	EPDNEW

RGD ID:

6859718

Promoter ID:

EPDNEW_H3023

Type:

initiation region

Name:

SDC1_2

Description:

syndecan 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Alternative Promoters:

null; see alsoEPDNEW_H3022

Experiment Methods:

Single-end sequencing.; Paired-end sequencing.

Position:

Human Assembly	Chr	Position (strand)	Source
GRCh38	2	20,225,475 - 20,225,535	EPDNEW

RGD ID:

6798146

Promoter ID:

HG_KWN:31674

Type:

CpG-Island

SO ACC ID:

SO:0000170

Source:

MPROMDB

Tissues & Cell Lines:

K562, Lymphoblastoid, NB4

Transcripts:

OTTHUMT00000323932, UC010EXW.1

Position:

Human Assembly	Chr	Position (strand)	Source
Build 36	2	20,286,601 - 20,287,427 (-)	MPROMDB

RGD ID:

6798126

Promoter ID:

HG_KWN:31675

Type:

CpG-Island

SO ACC ID:

SO:0000170

Source:

MPROMDB

Tissues & Cell Lines:

HeLa_S3, K562, Lymphoblastoid

Transcripts:

OTTHUMT00000323934

Position:

Human Assembly	Chr	Position (strand)	Source
Build 36	2	20,287,219 - 20,287,719 (-)	MPROMDB

RGD ID:

6798125

Promoter ID:

HG_KWN:31676

Type:

CpG-Island

SO ACC ID:

SO:0000170

Source:

MPROMDB

Tissues & Cell Lines:

HeLa_S3, Lymphoblastoid, NB4

Transcripts:

NM_001006946, NM_002997, OTTHUMT00000323933, UC010EXV.1

Position:

Human Assembly	Chr	Position (strand)	Source
Build 36	2	20,288,051 - 20,288,952 (-)	MPROMDB

RGD ID:

6853472

Promoter ID:

EP74561

Type:

initiation region

Name:

HS_SDC1

Description:

Syndecan 1.

SO ACC ID:

SO:0000170

Source:

EPD (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Mammalian gene collection (MGC) full-length cDNA cloning

Position:

Human Assembly	Chr	Position (strand)	Source
Build 36	2	20,288,353 - 20,288,413	EPD

Clinical Variants

Name	Type	Condition(s)	Position(s)	Clinical significance
GRCh38/hg38 2p25.3-23.1(chr2:30141-31766749)x3	copy number gain	See cases [RCV000052929]	Chr2:30141..31766749 [GRCh38] Chr2:30141..31991818 [GRCh37] Chr2:20141..31845322 [NCBI36] Chr2:2p25.3-23.1	pathogenic
GRCh38/hg38 2p25.3-16.1(chr2:66097-55570637)x3	copy number gain	See cases [RCV000052933]	Chr2:66097..55570637 [GRCh38] Chr2:66097..55797773 [GRCh37] Chr2:56097..55651277 [NCBI36] Chr2:2p25.3-16.1	pathogenic
NM_001006946.1(SDC1):c.929C>T (p.Ala310Val)	single nucleotide variant	Malignant melanoma [RCV000065364]	Chr2:20202770 [GRCh38] Chr2:20402531 [GRCh37] Chr2:20266012 [NCBI36] Chr2:2p24.1	not provided
NM_001006946.1(SDC1):c.439G>A (p.Glu147Lys)	single nucleotide variant	Malignant melanoma [RCV000065366]	Chr2:20204001 [GRCh38] Chr2:20403762 [GRCh37] Chr2:20267243 [NCBI36] Chr2:2p24.1	not provided
NM_001006946.1(SDC1):c.709C>T (p.Gln237Ter)	single nucleotide variant	Malignant melanoma [RCV000060460]	Chr2:20203141 [GRCh38] Chr2:20402902 [GRCh37] Chr2:20266383 [NCBI36] Chr2:2p24.1	not provided
GRCh38/hg38 2p25.3-23.2(chr2:30341-28419664)x3	copy number gain	See cases [RCV000135398]	Chr2:30341..28419664 [GRCh38] Chr2:30341..28642531 [GRCh37] Chr2:20341..28496035 [NCBI36] Chr2:2p25.3-23.2	pathogenic
GRCh38/hg38 2p25.3-23.3(chr2:17019-26318846)x3	copy number gain	See cases [RCV000137344]	Chr2:17019..26318846 [GRCh38] Chr2:17019..26541714 [GRCh37] Chr2:7019..26395218 [NCBI36] Chr2:2p25.3-23.3	pathogenic
GRCh38/hg38 2p25.3-24.1(chr2:1664615-23664142)x3	copy number gain	See cases [RCV000137913]	Chr2:1664615..23664142 [GRCh38] Chr2:1668387..23887012 [GRCh37] Chr2:1647394..23740517 [NCBI36] Chr2:2p25.3-24.1	pathogenic\|likely pathogenic
GRCh38/hg38 2p24.2-24.1(chr2:16723596-21600734)x1	copy number loss	See cases [RCV000139451]	Chr2:16723596..21600734 [GRCh38] Chr2:16904863..21823606 [GRCh37] Chr2:16768344..21677111 [NCBI36] Chr2:2p24.2-24.1	pathogenic\|likely pathogenic
GRCh38/hg38 2p25.3-22.3(chr2:12770-33711509)x3	copy number gain	See cases [RCV000141829]	Chr2:12770..33711509 [GRCh38] Chr2:12770..33936576 [GRCh37] Chr2:2770..33790080 [NCBI36] Chr2:2p25.3-22.3	pathogenic
GRCh38/hg38 2p25.3-23.3(chr2:12770-25039694)x3	copy number gain	See cases [RCV000141877]	Chr2:12770..25039694 [GRCh38] Chr2:12770..25262563 [GRCh37] Chr2:2770..25116067 [NCBI36] Chr2:2p25.3-23.3	pathogenic
GRCh38/hg38 2p25.1-11.2(chr2:7495123-87705899)x3	copy number gain	See cases [RCV000141494]	Chr2:7495123..87705899 [GRCh38] Chr2:7635254..88005418 [GRCh37] Chr2:7552705..87786533 [NCBI36] Chr2:2p25.1-11.2	benign
GRCh38/hg38 2p25.3-21(chr2:236816-45983232)x3	copy number gain	See cases [RCV000143682]	Chr2:236816..45983232 [GRCh38] Chr2:236816..46210371 [GRCh37] Chr2:226816..46063875 [NCBI36] Chr2:2p25.3-21	pathogenic
NM_002997.5(SDC1):c.188C>T (p.Ser63Phe)	single nucleotide variant	Long QT syndrome [RCV000190182]	Chr2:20204252 [GRCh38] Chr2:20404013 [GRCh37] Chr2:2p24.1	likely benign
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384)	copy number gain	See cases [RCV000512056]	Chr2:12771..242783384 [GRCh37] Chr2:2p25.3-q37.3	pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:12771-242783384)x3	copy number gain	See cases [RCV000511212]	Chr2:12771..242783384 [GRCh37] Chr2:2p25.3-q37.3	pathogenic
GRCh37/hg19 2p24.1-23.3(chr2:19905995-24762790)x1	copy number loss	not provided [RCV000682157]	Chr2:19905995..24762790 [GRCh37] Chr2:2p24.1-23.3	pathogenic
GRCh37/hg19 2p25.3-q37.3(chr2:15672-243101834)x3	copy number gain	not provided [RCV000752804]	Chr2:15672..243101834 [GRCh37] Chr2:2p25.3-q37.3	pathogenic
GRCh37/hg19 2p24.1(chr2:20423601-20424725)x1	copy number loss	not provided [RCV000752871]	Chr2:20423601..20424725 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p24.1(chr2:20423867-20427189)x1	copy number loss	not provided [RCV000752874]	Chr2:20423867..20427189 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p24.1(chr2:20423488-20424838)x1	copy number loss	not provided [RCV000752870]	Chr2:20423488..20424838 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p24.1(chr2:20423601-20424838)x1	copy number loss	not provided [RCV000752872]	Chr2:20423601..20424838 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p25.3-q37.3(chr2:14238-243048760)x3	copy number gain	not provided [RCV000752802]	Chr2:14238..243048760 [GRCh37] Chr2:2p25.3-q37.3	pathogenic
GRCh37/hg19 2p24.1(chr2:20423264-20425165)x0	copy number loss	not provided [RCV000752868]	Chr2:20423264..20425165 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p24.1(chr2:20423488-20424725)x1	copy number loss	not provided [RCV000752869]	Chr2:20423488..20424725 [GRCh37] Chr2:2p24.1	benign
NM_002997.5(SDC1):c.672C>T (p.Ala224=)	single nucleotide variant	not provided [RCV000904725]	Chr2:20203178 [GRCh38] Chr2:20402939 [GRCh37] Chr2:2p24.1	likely benign
NM_002997.5(SDC1):c.576T>C (p.Ala192=)	single nucleotide variant	not provided [RCV000768080]	Chr2:20203864 [GRCh38] Chr2:20403625 [GRCh37] Chr2:2p24.1	uncertain significance
NM_002997.5(SDC1):c.203C>T (p.Thr68Met)	single nucleotide variant	not provided [RCV000973667]	Chr2:20204237 [GRCh38] Chr2:20403998 [GRCh37] Chr2:2p24.1	benign
NM_002997.5(SDC1):c.346G>A (p.Ala116Thr)	single nucleotide variant	not provided [RCV000918508]	Chr2:20204094 [GRCh38] Chr2:20403855 [GRCh37] Chr2:2p24.1	benign
NM_002997.5(SDC1):c.227C>T (p.Thr76Met)	single nucleotide variant	not provided [RCV000894306]	Chr2:20204213 [GRCh38] Chr2:20403974 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p24.3-24.1(chr2:15631145-21729493)x1	copy number loss	not provided [RCV000847885]	Chr2:15631145..21729493 [GRCh37] Chr2:2p24.3-24.1	pathogenic
GRCh37/hg19 2p24.1(chr2:20167711-20601004)x3	copy number gain	not provided [RCV000848211]	Chr2:20167711..20601004 [GRCh37] Chr2:2p24.1	uncertain significance
NM_002997.5(SDC1):c.312T>C (p.Ala104=)	single nucleotide variant	not provided [RCV000952820]	Chr2:20204128 [GRCh38] Chr2:20403889 [GRCh37] Chr2:2p24.1	benign
NM_002997.5(SDC1):c.244G>A (p.Gly82Ser)	single nucleotide variant	not provided [RCV000888906]	Chr2:20204196 [GRCh38] Chr2:20403957 [GRCh37] Chr2:2p24.1	benign
NC_000002.11:g.(?_20113319)_(21266817_?)dup	duplication	Cranioectodermal dysplasia 2 [RCV001883009]\|not provided [RCV001900523]	Chr2:20113319..21266817 [GRCh37] Chr2:2p24.1	uncertain significance
GRCh37/hg19 2p24.1(chr2:20421008-20430049)x1	copy number loss	not provided [RCV000740350]	Chr2:20421008..20430049 [GRCh37] Chr2:2p24.1	benign
GRCh37/hg19 2p24.1(chr2:20423601-20425165)x1	copy number loss	not provided [RCV000752873]	Chr2:20423601..20425165 [GRCh37] Chr2:2p24.1	benign

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	HGNC:10658	AgrOrtholog
COSMIC	SDC1	COSMIC
Ensembl Genes	ENSG00000115884	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSP00000254351	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSP00000370542	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSP00000384613	UniProtKB/TrEMBL
	ENSP00000390201	UniProtKB/TrEMBL
	ENSP00000400773	UniProtKB/TrEMBL
Ensembl Transcript	ENST00000254351	ENTREZGENE, UniProtKB/Swiss-Prot
	ENST00000381150	ENTREZGENE, UniProtKB/Swiss-Prot
	ENST00000403076	UniProtKB/TrEMBL
	ENST00000429035	UniProtKB/TrEMBL
	ENST00000447124	UniProtKB/TrEMBL
GTEx	ENSG00000115884	GTEx
HGNC ID	HGNC:10658	ENTREZGENE
Human Proteome Map	SDC1	Human Proteome Map
InterPro	Neurexin-like	UniProtKB/Swiss-Prot
	Syndecan	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Syndecan-1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Syndecan/Neurexin_dom	UniProtKB/Swiss-Prot
	Syndecan_CS	UniProtKB/Swiss-Prot
KEGG Report	hsa:6382	UniProtKB/Swiss-Prot
NCBI Gene	6382	ENTREZGENE
OMIM	186355	OMIM
PANTHER	PTHR10915	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR10915:SF5	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Syndecan	UniProtKB/Swiss-Prot
PharmGKB	PA35588	PharmGKB
PROSITE	SYNDECAN	UniProtKB/Swiss-Prot
SMART	4.1m	UniProtKB/Swiss-Prot
UniProt	E9PHH3_HUMAN	UniProtKB/TrEMBL
	F8WCX9_HUMAN	UniProtKB/TrEMBL
	H7C1K4_HUMAN	UniProtKB/TrEMBL
	P18827	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	D6W523	UniProtKB/Swiss-Prot
	Q53QV0	UniProtKB/Swiss-Prot
	Q546D3	UniProtKB/Swiss-Prot
	Q96HB7	UniProtKB/Swiss-Prot

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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)

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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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Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)