Variant report

Variant	rs34533653
Chromosome Location	chr6:109800691-109800692
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109766673..109769201-chr6:109798430..109801986,3	MCF-7	breast:
2	chr6:109417075..109418905-chr6:109799494..109801799,2	K562	blood:
3	chr6:109774750..109777186-chr6:109800628..109803875,3	K562	blood:
4	chr6:109785634..109787468-chr6:109799694..109802286,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135596	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10499052	0.89[AFR][1000 genomes]
rs11968891	0.80[EUR][1000 genomes]
rs12528566	0.80[AMR][1000 genomes]
rs13192476	0.80[AMR][1000 genomes]
rs13195517	0.80[AMR][1000 genomes]
rs13204787	0.89[AFR][1000 genomes]
rs1322818	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34292461	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34320275	0.81[AMR][1000 genomes]
rs35969918	0.80[AMR][1000 genomes]
rs3757238	0.81[AMR][1000 genomes]
rs4428538	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61318425	0.80[AMR][1000 genomes]
rs71558370	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs34533653	RP11-425D10.10	cis	Esophagus Mucosa	GTEx
rs34533653	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs34533653	SMPD2	cis	Whole Blood	GTEx
rs34533653	MICAL1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109781400-109802200	Strong transcription	HSMM	muscle
2	chr6:109782400-109803000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:109789400-109803200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:109794400-109801200	Weak transcription	HSMMtube	muscle
5	chr6:109795200-109802400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:109797800-109803400	Transcr. at gene 5' and 3'	Dnd41	blood
7	chr6:109798000-109803400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:109798000-109803400	Genic enhancers	Fetal Thymus	thymus
9	chr6:109798200-109802200	Weak transcription	Gastric	stomach
10	chr6:109798200-109803000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:109798600-109802600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr6:109798600-109802800	Transcr. at gene 5' and 3'	Primary T cells from cord blood	blood
13	chr6:109798600-109803400	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
14	chr6:109798800-109800800	Enhancers	Stomach Mucosa	stomach
15	chr6:109798800-109801200	Enhancers	Adipose Nuclei	Adipose
16	chr6:109798800-109801200	Enhancers	Small Intestine	intestine
17	chr6:109798800-109801600	Enhancers	Right Atrium	heart
18	chr6:109798800-109802400	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
19	chr6:109799000-109801800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:109799000-109801800	Weak transcription	Fetal Kidney	kidney
21	chr6:109799000-109803000	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
22	chr6:109799200-109801200	Weak transcription	Aorta	Aorta
23	chr6:109799200-109801200	Weak transcription	Pancreas	Pancrea
24	chr6:109799200-109801400	Active TSS	GM12878-XiMat	blood
25	chr6:109799200-109801600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr6:109799200-109801600	Enhancers	Fetal Brain Male	brain
27	chr6:109799200-109801600	Weak transcription	Right Ventricle	heart
28	chr6:109799200-109802200	Enhancers	Brain Hippocampus Middle	brain
29	chr6:109799200-109802200	Weak transcription	Fetal Stomach	stomach
30	chr6:109799200-109803000	Weak transcription	Colonic Mucosa	Colon
31	chr6:109799200-109803400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr6:109799200-109803400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:109799200-109803400	Weak transcription	Esophagus	oesophagus
34	chr6:109799400-109800800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:109799400-109800800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
36	chr6:109799400-109801200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr6:109799400-109801200	Weak transcription	Left Ventricle	heart
38	chr6:109799400-109801200	Weak transcription	Lung	lung
39	chr6:109799400-109801200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:109799600-109800800	Transcr. at gene 5' and 3'	Primary B cells from cord blood	blood
41	chr6:109799600-109800800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:109799600-109801200	Weak transcription	Fetal Muscle Trunk	muscle
43	chr6:109799600-109801200	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:109799600-109801200	Weak transcription	Psoas Muscle	Psoas
45	chr6:109799600-109801400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
46	chr6:109799600-109801400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr6:109799600-109801400	Weak transcription	Liver	Liver
48	chr6:109799600-109802200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
49	chr6:109799600-109803800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr6:109799800-109800800	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood

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