Variant report

Variant	rs35056702
Chromosome Location	chr6:109736326-109736327
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:109735393..109737458-chr6:109775192..109778139,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135596	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10080429	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1040284	0.92[EUR][1000 genomes]
rs10457190	0.91[EUR][1000 genomes]
rs1048203	0.95[EUR][1000 genomes]
rs10782161	0.95[EUR][1000 genomes]
rs10782162	0.82[EUR][1000 genomes]
rs10872032	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10872034	0.82[EUR][1000 genomes]
rs11153171	0.84[EUR][1000 genomes]
rs11153174	0.92[EUR][1000 genomes]
rs11153175	0.92[EUR][1000 genomes]
rs11153176	0.92[EUR][1000 genomes]
rs11153177	0.95[EUR][1000 genomes]
rs11153180	0.95[EUR][1000 genomes]
rs11153181	0.95[EUR][1000 genomes]
rs11967108	0.92[EUR][1000 genomes]
rs12190920	0.87[EUR][1000 genomes]
rs12190996	0.86[EUR][1000 genomes]
rs12192847	0.87[EUR][1000 genomes]
rs12193493	0.92[EUR][1000 genomes]
rs12197114	0.95[EUR][1000 genomes]
rs12206928	0.89[EUR][1000 genomes]
rs12209691	0.87[EUR][1000 genomes]
rs12213313	0.95[EUR][1000 genomes]
rs12524273	0.93[EUR][1000 genomes]
rs12524639	0.93[EUR][1000 genomes]
rs12528822	0.89[EUR][1000 genomes]
rs13212766	0.91[EUR][1000 genomes]
rs1322816	0.92[EUR][1000 genomes]
rs1358997	0.93[EUR][1000 genomes]
rs1358998	0.93[EUR][1000 genomes]
rs1546980	0.89[EUR][1000 genomes]
rs1590306	0.92[EUR][1000 genomes]
rs17070580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1923725	0.93[EUR][1000 genomes]
rs2236582	0.95[EUR][1000 genomes]
rs2275650	0.91[EUR][1000 genomes]
rs34202013	0.91[EUR][1000 genomes]
rs36035949	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs36099706	0.95[EUR][1000 genomes]
rs3757234	0.93[EUR][1000 genomes]
rs3778475	0.92[EUR][1000 genomes]
rs3778477	0.88[EUR][1000 genomes]
rs3799839	0.93[EUR][1000 genomes]
rs3807005	0.87[EUR][1000 genomes]
rs3818934	0.91[EUR][1000 genomes]
rs59056467	0.83[EUR][1000 genomes]
rs59906308	0.94[EUR][1000 genomes]
rs68042406	0.83[EUR][1000 genomes]
rs6920962	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6929023	0.93[EUR][1000 genomes]
rs7372	0.92[EUR][1000 genomes]
rs752262	0.89[EUR][1000 genomes]
rs7773095	0.94[EUR][1000 genomes]
rs9320287	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480933	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9480948	0.94[EUR][1000 genomes]
rs9480951	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9480953	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480955	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480957	0.95[EUR][1000 genomes]
rs9487068	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9487094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487097	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487098	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9487100	0.95[EUR][1000 genomes]
rs9885646	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs35056702	MICAL1	Cis_1M	lymphoblastoid	RTeQTL
rs35056702	SMPD2	cis	Whole Blood	GTEx
rs35056702	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109705000-109745200	Weak transcription	Fetal Kidney	kidney
2	chr6:109707000-109755400	Weak transcription	Fetal Intestine Small	intestine
3	chr6:109721200-109760600	Weak transcription	Fetal Brain Female	brain
4	chr6:109724400-109750400	Weak transcription	Ovary	ovary
5	chr6:109725000-109736600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr6:109725800-109760800	Weak transcription	Brain Anterior Caudate	brain
7	chr6:109731400-109745200	Weak transcription	Pancreas	Pancrea
8	chr6:109735200-109750200	Weak transcription	Fetal Muscle Leg	muscle
9	chr6:109735600-109750000	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:109735800-109736400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
11	chr6:109735800-109742000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:109736200-109736600	ZNF genes & repeats	Brain Angular Gyrus	brain
13	chr6:109736200-109737000	Strong transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links