Variant report

Variant	rs1378662
Chromosome Location	chr3:160481293-160481294
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160471123..160476793-chr3:160477705..160482988,8	K562	blood:

Variant related genes	Relation type
ENSG00000163590	Chromatin interaction
ENSG00000260572	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1159747	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1357255	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1378663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1455870	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs1455871	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs16831442	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes]
rs16831457	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs16831473	1.00[CEU][hapmap]
rs16831516	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs16831520	1.00[CEU][hapmap];0.82[GIH][hapmap];0.92[TSI][hapmap]
rs17236613	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236620	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs17236641	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17236648	0.85[AFR][1000 genomes]
rs17236655	1.00[ASN][1000 genomes]
rs17236662	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs17826352	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs17826358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17826364	0.85[AFR][1000 genomes]
rs17826370	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.85[AFR][1000 genomes]
rs17826376	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.85[AFR][1000 genomes]
rs2068817	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs4627794	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs56083575	0.85[AFR][1000 genomes]
rs56180903	0.85[AFR][1000 genomes]
rs56305441	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56354102	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6768524	1.00[CEU][hapmap]
rs6771910	1.00[CEU][hapmap]
rs6779461	1.00[CEU][hapmap]
rs7618082	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs7629154	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap]
rs7633401	1.00[CEU][hapmap]
rs9837945	0.87[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160475800-160497200	Weak transcription	Left Ventricle	heart
2	chr3:160476000-160496400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:160477400-160489600	Weak transcription	Fetal Heart	heart
4	chr3:160477600-160483000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr3:160477600-160489800	Weak transcription	Brain Anterior Caudate	brain
6	chr3:160477600-160497000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr3:160477600-160498200	Weak transcription	Stomach Mucosa	stomach
8	chr3:160477800-160485600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:160477800-160488200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:160477800-160497800	Weak transcription	Brain Angular Gyrus	brain
11	chr3:160478400-160481400	Weak transcription	Fetal Brain Male	brain
12	chr3:160478400-160482800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:160479200-160481600	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr3:160479200-160483000	Weak transcription	Colon Smooth Muscle	Colon
15	chr3:160481200-160481400	Enhancers	Psoas Muscle	Psoas

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