Variant report

Variant	rs56152789
Chromosome Location	chr6:28288135-28288136
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28234639..28236512-chr6:28285629..28288301,2	K562	blood:
2	chr6:27863775..27866407-chr6:28287805..28289740,2	K562	blood:
3	chr6:28287491..28290035-chr6:28302948..28305431,2	K562	blood:
4	chr6:28285662..28290423-chr6:28300603..28305447,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197062	Chromatin interaction
ENSG00000238610	Chromatin interaction
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs16893889	0.82[EUR][1000 genomes]
rs16893947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16893970	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1936364	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2179174	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6936644	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7772827	0.93[ASN][1000 genomes]
rs9468334	0.87[AMR][1000 genomes];0.93[EUR][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	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28250000-28293800	Weak transcription	Gastric	stomach
2	chr6:28255200-28293800	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:28268800-28293400	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:28269200-28291600	Weak transcription	Right Ventricle	heart
5	chr6:28270000-28290400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:28270000-28291400	Weak transcription	Ovary	ovary
7	chr6:28270000-28291600	Weak transcription	Brain Anterior Caudate	brain
8	chr6:28270000-28291600	Weak transcription	Fetal Brain Female	brain
9	chr6:28270000-28293400	Weak transcription	Brain Angular Gyrus	brain
10	chr6:28271200-28293800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:28271400-28293400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:28272400-28291800	Weak transcription	Brain Hippocampus Middle	brain
13	chr6:28272400-28293200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:28272600-28292000	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:28272600-28292600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr6:28272600-28292600	Weak transcription	Brain Germinal Matrix	brain
17	chr6:28273000-28291600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:28279400-28290600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr6:28279400-28293800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:28279800-28288200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:28281200-28290800	Weak transcription	Fetal Stomach	stomach
22	chr6:28281200-28290800	Weak transcription	Left Ventricle	heart
23	chr6:28281200-28291600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:28281200-28291600	Weak transcription	Pancreas	Pancrea
25	chr6:28281200-28293600	Weak transcription	Rectal Smooth Muscle	rectum
26	chr6:28284000-28288200	Weak transcription	Aorta	Aorta
27	chr6:28287600-28288600	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links