Variant report

Variant	rs9328213
Chromosome Location	chr6:4017145-4017146
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:3156268..3158209-chr6:4016480..4019162,2	K562	blood:
2	chr6:4016030..4019961-chr6:4020836..4023596,5	MCF-7	breast:
3	chr6:4016355..4024618-chr6:4131840..4138381,21	K562	blood:
4	chr6:4016440..4019187-chr6:4054276..4058013,4	K562	blood:
5	chr6:3997501..3999211-chr6:4016171..4017949,2	MCF-7	breast:
6	chr6:3259427..3261406-chr6:4015197..4018106,2	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf146-1	chr6:4016675-4018801	XLOC_005587
2	lnc-C6orf146-1	chr6:4006806-4020323	NONHSAT107264

No data

Variant related genes	Relation type
ENSG00000254821	Chromatin interaction
ENSG00000112739	Chromatin interaction
ENSG00000137267	Chromatin interaction
ENSG00000198721	Chromatin interaction
ENSG00000230648	Chromatin interaction
ENSG00000234817	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1886334	0.98[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4959915	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6421941	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6597023	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6597024	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6918566	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6939049	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7763721	0.92[ASN][1000 genomes]
rs9378394	0.89[ASN][1000 genomes]
rs9405690	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:3991600-4017200	Weak transcription	Fetal Brain Female	brain
2	chr6:3991600-4017400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:3991600-4017600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:3991800-4017400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:3991800-4017400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:3991800-4017600	Weak transcription	Fetal Muscle Leg	muscle
7	chr6:3997400-4017400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:3997600-4017600	Weak transcription	Psoas Muscle	Psoas
9	chr6:3998000-4017400	Weak transcription	NHLF	lung
10	chr6:3998200-4017400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:3998400-4017600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:3998400-4017600	Weak transcription	Small Intestine	intestine
13	chr6:3998800-4017400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:4000200-4017400	Weak transcription	HUVEC	blood vessel
15	chr6:4005600-4017400	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:4008400-4017600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:4008600-4017400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:4008600-4017600	Weak transcription	HSMMtube	muscle
19	chr6:4008800-4017200	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr6:4008800-4017400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr6:4008800-4017400	Weak transcription	Brain Anterior Caudate	brain
22	chr6:4008800-4017400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr6:4008800-4017400	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr6:4008800-4017400	Weak transcription	Stomach Mucosa	stomach
25	chr6:4008800-4017400	Weak transcription	A549	lung
26	chr6:4009000-4017400	Weak transcription	NH-A	brain
27	chr6:4009000-4017400	Weak transcription	Osteobl	bone
28	chr6:4011200-4018000	Weak transcription	Pancreas	Pancrea
29	chr6:4011200-4018200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr6:4011400-4017200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr6:4011400-4017400	Weak transcription	Brain Angular Gyrus	brain
32	chr6:4011400-4017400	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr6:4011400-4017600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr6:4011400-4017600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr6:4011400-4017600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr6:4011400-4017600	Weak transcription	Right Atrium	heart
37	chr6:4011400-4017600	Weak transcription	Right Ventricle	heart
38	chr6:4011400-4018000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr6:4011400-4018000	Weak transcription	Ovary	ovary
40	chr6:4011400-4018200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr6:4011400-4018200	Weak transcription	Lung	lung
42	chr6:4011400-4018400	Weak transcription	Spleen	Spleen
43	chr6:4011600-4017400	Weak transcription	Monocytes-CD14+_RO01746	blood
44	chr6:4011800-4017400	Weak transcription	NHEK	skin
45	chr6:4012200-4017400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:4012600-4017400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr6:4012600-4017400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
48	chr6:4013000-4017400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:4013200-4018000	Weak transcription	Left Ventricle	heart
50	chr6:4014200-4017600	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links