Variant report

Variant	rs35713035
Chromosome Location	chr17:46501710-46501711
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:46500936..46503842-chr17:46534803..46536418,2	K562	blood:
2	chr17:46498978..46503056-chr17:46506628..46509777,3	MCF-7	breast:
3	chr17:46499517..46502307-chr17:46698484..46700258,2	K562	blood:

Variant related genes	Relation type
ENSG00000141293	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12939680	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12940162	0.81[EUR][1000 genomes]
rs12941877	0.81[EUR][1000 genomes]
rs12945780	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12948086	0.80[EUR][1000 genomes]
rs1396870	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1533057	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17623154	0.81[EUR][1000 genomes]
rs17623482	0.81[EUR][1000 genomes]
rs17696503	0.81[EUR][1000 genomes]
rs17696640	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34771639	0.82[AMR][1000 genomes]
rs34791545	0.81[ASN][1000 genomes]
rs35003027	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs35387091	0.82[AMR][1000 genomes]
rs35509644	0.81[EUR][1000 genomes]
rs35533148	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35680046	0.82[AMR][1000 genomes]
rs35759756	0.81[EUR][1000 genomes]
rs35767434	0.82[AMR][1000 genomes]
rs4128439	0.80[EUR][1000 genomes]
rs55682156	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56146024	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6504257	0.82[AMR][1000 genomes]
rs66529852	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7206951	0.80[EUR][1000 genomes]
rs7211712	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7214269	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7215143	0.80[EUR][1000 genomes]
rs7218217	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7218848	0.81[EUR][1000 genomes]
rs7220387	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7224686	0.81[EUR][1000 genomes]
rs8072521	0.81[EUR][1000 genomes]
rs8073466	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]

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	nsv833469	chr17:46491849-46709406	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35713035	HOXB2	cis	Adipose Subcutaneous	GTEx
rs35713035	SKAP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46486800-46503000	Weak transcription	Thymus	Thymus
2	chr17:46487600-46501800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr17:46487800-46503600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr17:46489000-46501800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr17:46489200-46502200	Weak transcription	Fetal Thymus	thymus
6	chr17:46489800-46505000	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr17:46492000-46503000	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr17:46494600-46503600	Weak transcription	Primary B cells from peripheral blood	blood
9	chr17:46494800-46502600	Weak transcription	GM12878-XiMat	blood
10	chr17:46497400-46502000	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr17:46498400-46503200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr17:46498600-46503600	Enhancers	Primary T cells from cord blood	blood
13	chr17:46498800-46502400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr17:46499200-46501800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr17:46499800-46503600	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr17:46500600-46503600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr17:46500800-46502800	Genic enhancers	Primary T cells fromperipheralblood	blood
18	chr17:46500800-46503000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr17:46501000-46502400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr17:46501000-46502600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr17:46501600-46503600	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links