Variant report

Variant	rs417877
Chromosome Location	chr3:155411941-155411942
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:155406669..155408242-chr3:155411925..155413754,2	K562	blood:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs13076587	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13079863	1.00[CEU][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13084995	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13087389	0.83[ASN][1000 genomes]
rs13089059	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1879090	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1879091	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1879092	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2203886	0.83[ASN][1000 genomes]
rs2222275	0.89[CEU][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34810038	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs358704	0.85[ASN][1000 genomes]
rs358706	0.88[ASN][1000 genomes]
rs358707	0.88[ASN][1000 genomes]
rs358708	0.88[ASN][1000 genomes]
rs358727	0.89[CEU][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs358728	0.83[AMR][1000 genomes]
rs358896	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358897	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs358898	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358899	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs358902	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs358903	1.00[CEU][hapmap]
rs358904	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs358905	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs358906	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs358910	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358911	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358912	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs386867	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs407212	0.86[ASN][1000 genomes]
rs4083041	0.81[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs412664	0.88[ASN][1000 genomes]
rs426069	0.88[ASN][1000 genomes]
rs492858	0.81[AMR][1000 genomes]
rs500347	0.81[AMR][1000 genomes]
rs6441006	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67428377	0.81[AMR][1000 genomes]
rs6777741	0.85[ASN][1000 genomes]
rs67955071	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7428196	0.85[ASN][1000 genomes]
rs7645831	0.85[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	nsv1009618	chr3:155370034-155492177	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv3486322	chr3:155410094-155412301	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv3352105	chr3:155410208-155412306	Weak transcription Strong transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2587266	chr3:155410397-155412159	Weak transcription ZNF genes & repeats Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155395000-155416800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:155395200-155412000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:155399800-155422000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:155400600-155421000	Weak transcription	Fetal Intestine Small	intestine
5	chr3:155400800-155418400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:155408400-155413400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:155408800-155416400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:155408800-155418600	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr3:155409000-155419200	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:155409000-155419400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr3:155409200-155418400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr3:155409200-155422200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr3:155411000-155414000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:155411000-155420600	Weak transcription	Fetal Intestine Large	intestine
15	chr3:155411800-155412000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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