Variant report

Variant	rs3846322
Chromosome Location	chr4:149173629-149173630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10519952	0.82[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.95[ASN][1000 genomes]
rs11099686	1.00[CHB][hapmap]
rs11099687	1.00[CHB][hapmap]
rs12498662	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs17024541	0.94[ASN][1000 genomes]
rs17484245	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs17581605	0.81[CHB][hapmap]
rs3752701	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846329	1.00[CHB][hapmap]
rs3910047	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs3925570	1.00[CHB][hapmap]
rs4835133	0.91[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.88[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59896839	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61349394	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6535599	1.00[CHB][hapmap]
rs6855341	0.83[ASW][hapmap];0.81[CEU][hapmap];0.93[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.82[MEX][hapmap];0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs72491781	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027263	chr4:149127120-149320135	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv537296	chr4:149127120-149320135	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv880245	chr4:149132756-149183374	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1031815	chr4:149172485-149282928	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3846322	OTUD4	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:149160800-149179800	Weak transcription	Psoas Muscle	Psoas
2	chr4:149166600-149174400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr4:149169800-149175200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr4:149170400-149175400	Weak transcription	HUVEC	blood vessel
5	chr4:149171000-149183600	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr4:149171200-149175200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr4:149171200-149178800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr4:149172000-149179400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr4:149172400-149174200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr4:149172400-149175200	Weak transcription	Ovary	ovary
11	chr4:149172600-149174200	Weak transcription	Left Ventricle	heart
12	chr4:149172600-149174200	Weak transcription	Right Atrium	heart
13	chr4:149173000-149175800	Enhancers	Right Ventricle	heart
14	chr4:149173200-149174200	Weak transcription	Pancreas	Pancrea
15	chr4:149173200-149176200	Weak transcription	Stomach Smooth Muscle	stomach
16	chr4:149173600-149176600	Weak transcription	Fetal Kidney	kidney

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links