Variant report

Variant	rs35452836
Chromosome Location	chr6:109699446-109699447
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:109685661-109704818	K562	blood:	n/a	n/a
2	POLR2A	chr6:109699003-109699511	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:109414759..109417179-chr6:109698567..109701300,2	MCF-7	breast:
2	chr6:109561446..109564141-chr6:109698737..109700867,2	K562	blood:
3	chr6:109556321..109558385-chr6:109699289..109701143,2	K562	blood:

Variant related genes	Relation type
ENSG00000260273	TF binding region
ENSG00000080546	Chromatin interaction
ENSG00000243587	Chromatin interaction
ENSG00000183137	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11753645	0.84[EUR][1000 genomes]
rs11757877	0.84[EUR][1000 genomes]
rs12524502	0.81[EUR][1000 genomes]
rs12528566	0.81[EUR][1000 genomes]
rs12528712	0.82[EUR][1000 genomes]
rs13192476	0.83[EUR][1000 genomes]
rs13195517	0.80[EUR][1000 genomes]
rs13199519	0.84[EUR][1000 genomes]
rs13203252	0.84[EUR][1000 genomes]
rs2275652	0.83[EUR][1000 genomes]
rs34131679	0.84[EUR][1000 genomes]
rs34320275	0.81[EUR][1000 genomes]
rs35969918	0.81[EUR][1000 genomes]
rs3799835	0.84[EUR][1000 genomes]
rs3799840	0.85[EUR][1000 genomes]
rs61233650	0.84[EUR][1000 genomes]
rs61318425	0.81[EUR][1000 genomes]
rs67857472	0.84[EUR][1000 genomes]
rs6929208	0.84[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs35452836	SMPD2	cis	Whole Blood	GTEx
rs35452836	RP11-425D10.10	cis	Esophagus Mucosa	GTEx
rs35452836	MICAL1	Cis_1M	lymphoblastoid	RTeQTL
rs35452836	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs35452836	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109675000-109700800	Strong transcription	Placenta	Placenta
2	chr6:109677800-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:109679200-109700400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:109679400-109700600	Strong transcription	HUES6 Cell Line	embryonic stem cell
5	chr6:109680600-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:109682600-109700800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:109683200-109699800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
8	chr6:109683800-109700600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:109684000-109702400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:109684400-109702400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:109684600-109700200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:109684600-109700400	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr6:109684800-109700200	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:109685800-109700600	Strong transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:109686600-109700200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:109686800-109700200	Strong transcription	HSMM	muscle
17	chr6:109687400-109700200	Strong transcription	NH-A	brain
18	chr6:109687600-109700200	Strong transcription	NHEK	skin
19	chr6:109690600-109701800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr6:109691600-109699600	Strong transcription	Cortex derived primary cultured neurospheres	brain
21	chr6:109692000-109700000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:109692800-109700200	Strong transcription	NHLF	lung
23	chr6:109693000-109699600	Strong transcription	Fetal Kidney	kidney
24	chr6:109693400-109702600	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:109693600-109699600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:109693800-109700200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:109693800-109700200	Strong transcription	Muscle Satellite Cultured Cells	--
28	chr6:109694200-109700400	Strong transcription	HUVEC	blood vessel
29	chr6:109694200-109700600	Strong transcription	Osteobl	bone
30	chr6:109694400-109699800	Strong transcription	Stomach Smooth Muscle	stomach
31	chr6:109694400-109700200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr6:109694400-109700400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr6:109694400-109700400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:109694400-109700400	Strong transcription	Fetal Muscle Leg	muscle
35	chr6:109694400-109700800	Strong transcription	Fetal Muscle Trunk	muscle
36	chr6:109694400-109701800	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:109694600-109699600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:109694600-109699600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:109694600-109699600	Strong transcription	Fetal Stomach	stomach
40	chr6:109695200-109700200	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr6:109695600-109699800	Strong transcription	Hela-S3	cervix
42	chr6:109695600-109700200	Strong transcription	Colonic Mucosa	Colon
43	chr6:109696000-109700000	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr6:109696000-109700200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr6:109696000-109700200	Weak transcription	Right Atrium	heart
46	chr6:109696200-109700400	Weak transcription	Fetal Heart	heart
47	chr6:109696600-109699800	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr6:109696600-109700400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr6:109696600-109700600	Weak transcription	A549	lung
50	chr6:109696600-109701400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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