Variant report

Variant	rs9400276
Chromosome Location	chr6:109647405-109647406
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109641011..109643072-chr6:109645120..109647555,2	K562	blood:
2	chr6:109645286..109648549-chr6:109701457..109703772,3	K562	blood:
3	chr6:109644113..109647625-chr6:109647816..109651076,4	K562	blood:

Variant related genes	Relation type
ENSG00000135535	Chromatin interaction
ENSG00000218632	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11153166	0.85[TSI][hapmap]
rs11153167	0.85[TSI][hapmap]
rs11153168	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs11751953	0.88[EUR][1000 genomes]
rs11966072	0.91[CEU][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes]
rs1260593	0.82[CEU][hapmap]
rs13195500	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196219	0.91[CEU][hapmap];0.88[EUR][1000 genomes]
rs13196590	0.83[CEU][hapmap]
rs13200047	0.88[CEU][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs13202939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2884036	1.00[CEU][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs351719	0.82[CEU][hapmap]
rs351720	0.82[CEU][hapmap]
rs351721	0.82[CEU][hapmap]
rs351723	0.82[CEU][hapmap]
rs351726	0.82[CEU][hapmap]
rs351727	0.82[CEU][hapmap]
rs351730	0.82[CEU][hapmap]
rs351742	0.83[CEU][hapmap]
rs35757653	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35849756	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs371960	0.83[CEU][hapmap]
rs377436	0.82[CEU][hapmap]
rs386696	0.83[CEU][hapmap]
rs399561	0.83[CEU][hapmap]
rs412754	0.82[CEU][hapmap]
rs422113	0.87[CEU][hapmap]
rs427960	0.83[CEU][hapmap]
rs4301336	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.97[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs442405	0.83[CEU][hapmap]
rs446974	0.82[CEU][hapmap]
rs449736	0.82[CEU][hapmap]
rs449850	0.83[CEU][hapmap]
rs455839	0.83[CEU][hapmap]
rs458185	0.83[CEU][hapmap]
rs458740	0.80[CEU][hapmap]
rs459956	0.82[CEU][hapmap]
rs461487	0.82[CEU][hapmap]
rs463503	0.81[CEU][hapmap]
rs463916	0.83[CEU][hapmap]
rs59502176	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59673	0.87[CEU][hapmap]
rs7773490	0.86[CHB][hapmap]
rs830554	0.82[CEU][hapmap]
rs9374081	0.91[CEU][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5435	chr6:109633035-109669127	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv969434	chr6:109645476-109649777	Weak transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9400276	KIAA1919	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109629600-109654000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:109637400-109649800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:109640600-109648800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:109640800-109648600	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr6:109641000-109653600	Weak transcription	Small Intestine	intestine
6	chr6:109643800-109647800	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr6:109644600-109675200	Weak transcription	Primary T cells from cord blood	blood
8	chr6:109644800-109657400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:109645400-109647600	Weak transcription	K562	blood
10	chr6:109645400-109653600	Weak transcription	Spleen	Spleen
11	chr6:109645400-109662400	Weak transcription	Aorta	Aorta
12	chr6:109646600-109647800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:109647000-109647600	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr6:109647000-109649600	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr6:109647200-109647600	Enhancers	Fetal Intestine Large	intestine
16	chr6:109647200-109651600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr6:109647400-109647800	Enhancers	Primary B cells from cord blood	blood
18	chr6:109647400-109648200	Enhancers	Fetal Intestine Small	intestine

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