Variant report

Variant	rs1324685
Chromosome Location	chr6:147204457-147204458
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:147204253..147217184-chr6:147521370..147537831,35	K562	blood:
2	chr6:147199344..147201581-chr6:147203117..147205673,2	MCF-7	breast:
3	chr6:147200700..147210109-chr6:147522792..147529002,17	K562	blood:
4	chr6:147203984..147206135-chr6:147407183..147409245,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SHPRH-6	chr6:147204159-147205937	l_3289_chr6:147204158-147214165_brain

Variant related genes	Relation type
ENSG00000164506	Chromatin interaction
ENSG00000233452	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1119876	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1122570	0.96[CEU][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1324683	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1408575	0.80[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs1543548	0.82[AMR][1000 genomes]
rs1853696	0.93[CHB][hapmap]
rs1924691	0.84[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1924693	0.96[CEU][hapmap];0.93[CHB][hapmap];0.82[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2224906	0.93[CHB][hapmap];0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs2328769	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2328770	0.91[JPT][hapmap]
rs259371	0.83[JPT][hapmap]
rs3818410	0.81[AMR][1000 genomes]
rs6570778	0.91[JPT][hapmap]
rs6915391	0.91[JPT][hapmap]
rs6926192	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6929209	0.91[JPT][hapmap]
rs6937015	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7740261	0.92[ASN][1000 genomes]
rs7751561	0.84[ASN][1000 genomes]
rs7755795	0.88[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7766908	0.84[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs912581	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs927672	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs9377033	0.92[CHB][hapmap];0.84[ASN][1000 genomes]
rs9377034	0.86[ASN][1000 genomes]
rs9386175	0.90[CHB][hapmap];0.91[ASN][1000 genomes]
rs9390437	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9390438	0.84[ASN][1000 genomes]
rs9399587	0.91[JPT][hapmap]
rs9403826	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9403827	0.91[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	nsv830838	chr6:147090745-147274669	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 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	chr6:147198200-147205600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:147200000-147205600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:147200200-147204800	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:147200200-147205000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr6:147200200-147205400	Weak transcription	Liver	Liver
6	chr6:147200200-147208600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr6:147200400-147204800	Weak transcription	Fetal Intestine Small	intestine
8	chr6:147200400-147205000	Weak transcription	Fetal Intestine Large	intestine
9	chr6:147200800-147205000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:147201200-147208000	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr6:147201400-147205000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr6:147202200-147212400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:147202800-147205000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr6:147203200-147204600	Enhancers	K562	blood
15	chr6:147203200-147212000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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