Variant report

Variant	rs9461981
Chromosome Location	chr6:34359796-34359797
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:17)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:34203144..34206658-chr6:34358641..34361602,5	MCF-7	breast:
2	chr6:34359614..34360461-chr9:130742747..130743592,2	HCT-116	colon:
3	chr6:34359786..34360581-chrX:107334340..107334971,2	Hela-S3	cervix:
4	chr6:34336023..34338003-chr6:34357501..34359863,2	K562	blood:
5	chr6:34202422..34206409-chr6:34359682..34362061,4	MCF-7	breast:
6	chr19:34662845..34663493-chr6:34359460..34360357,2	Hela-S3	cervix:
7	chr6:34214133..34219385-chr6:34356600..34362053,16	K562	blood:
8	chr6:34202852..34208935-chr6:34358420..34361531,11	K562	blood:
9	chr6:34232571..34234778-chr6:34358274..34360439,2	K562	blood:
10	chr6:34242678..34244532-chr6:34357227..34359923,2	MCF-7	breast:
11	chr6:34202383..34217863-chr6:34357259..34364960,37	K562	blood:
12	chr6:34357967..34362826-chr6:34390808..34395314,8	K562	blood:
13	chr6:34213633..34219276-chr6:34358105..34363296,16	MCF-7	breast:
14	chr6:34358195..34361774-chr6:34391620..34393850,4	K562	blood:
15	chr6:34358377..34360251-chr6:34384641..34386602,2	MCF-7	breast:
16	chr6:34358853..34362255-chr6:34392162..34395391,9	MCF-7	breast:
17	chr6:34215295..34220270-chr6:34358417..34361933,11	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PACSIN1-1	chr6:34355460-34360244	NONHSAT112133
2	lnc-PACSIN1-1	chr6:34359628-34362546	l_3174_chr6:34355416-34362546_76bGuttman_hLF

No data

Variant related genes	Relation type
ENSG00000101844	Chromatin interaction
ENSG00000257103	Chromatin interaction
ENSG00000186577	Chromatin interaction
ENSG00000167106	Chromatin interaction
ENSG00000137309	Chromatin interaction
ENSG00000270800	Chromatin interaction
ENSG00000101843	Chromatin interaction
ENSG00000124614	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs169584	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1811968	0.95[ASN][1000 genomes]
rs2006833	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs206919	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs206920	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs206921	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs206924	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs206936	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs206941	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs206942	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2237098	0.87[AMR][1000 genomes]
rs28847046	0.82[ASN][1000 genomes]
rs3798556	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3798560	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3913009	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3913010	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs410340	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs414739	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs458576	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4587164	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs464553	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs568502	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57622072	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6457773	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6907486	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6912971	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6924482	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6924982	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6925243	0.81[ASN][1000 genomes]
rs6930978	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7757586	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7757900	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7765498	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7775635	0.83[ASN][1000 genomes]
rs9366856	0.84[ASN][1000 genomes]
rs9368810	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9368813	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9380433	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9380435	0.88[ASN][1000 genomes]
rs9394214	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9394215	0.92[ASN][1000 genomes]
rs9394218	0.84[ASN][1000 genomes]
rs9469775	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9469778	0.87[ASN][1000 genomes]
rs9469779	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9469780	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv1034978	chr6:34327526-34362187	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv981324	chr6:34351435-34360764	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9461981	NUDT3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34358000-34360800	Active TSS	HMEC	breast
2	chr6:34358000-34361000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:34358000-34361000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:34358000-34361200	Active TSS	NHLF	lung
5	chr6:34358200-34359800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:34358200-34360800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:34358200-34361200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:34358200-34361400	Active TSS	Fetal Brain Female	brain
9	chr6:34358400-34359800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr6:34358400-34359800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:34358400-34360000	Flanking Active TSS	Primary hematopoietic stem cells	blood
12	chr6:34358400-34360800	Active TSS	Fetal Intestine Small	intestine
13	chr6:34358400-34361000	Active TSS	HUES48 Cell Line	embryonic stem cell
14	chr6:34358400-34361000	Active TSS	iPS-20b Cell Line	embryonic stem cell
15	chr6:34358400-34361000	Active TSS	A549	lung
16	chr6:34358400-34361200	Active TSS	HUES6 Cell Line	embryonic stem cell
17	chr6:34358400-34361200	Active TSS	Aorta	Aorta
18	chr6:34358400-34361400	Active TSS	Brain Inferior Temporal Lobe	brain
19	chr6:34358400-34361600	Active TSS	Brain Hippocampus Middle	brain
20	chr6:34358600-34359800	Flanking Active TSS	Adipose Nuclei	Adipose
21	chr6:34358600-34359800	Active TSS	Fetal Brain Male	brain
22	chr6:34358600-34360000	Flanking Active TSS	Primary B cells from cord blood	blood
23	chr6:34358600-34360000	Active TSS	Colonic Mucosa	Colon
24	chr6:34358600-34360800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:34358600-34360800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:34358600-34360800	Active TSS	Fetal Muscle Trunk	muscle
27	chr6:34358600-34360800	Active TSS	NHEK	skin
28	chr6:34358600-34361000	Active TSS	ES-I3 Cell Line	embryonic stem cell
29	chr6:34358600-34361000	Active TSS	iPS-15b Cell Line	embryonic stem cell
30	chr6:34358600-34361000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr6:34358600-34361000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:34358600-34361000	Active TSS	Fetal Kidney	kidney
33	chr6:34358600-34361000	Active TSS	Stomach Mucosa	stomach
34	chr6:34358600-34361000	Active TSS	GM12878-XiMat	blood
35	chr6:34358600-34361000	Active TSS	HSMMtube	muscle
36	chr6:34358600-34361200	Active TSS	H1 Cell Line	embryonic stem cell
37	chr6:34358600-34361200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr6:34358600-34361200	Active TSS	Ovary	ovary
39	chr6:34358600-34361200	Active TSS	Psoas Muscle	Psoas
40	chr6:34358600-34361200	Active TSS	Right Ventricle	heart
41	chr6:34358600-34361200	Active TSS	HSMM	muscle
42	chr6:34358800-34359800	Flanking Active TSS	Primary T cells from cord blood	blood
43	chr6:34358800-34359800	Flanking Active TSS	Placenta	Placenta
44	chr6:34358800-34359800	Flanking Active TSS	Fetal Thymus	thymus
45	chr6:34358800-34360600	Active TSS	Stomach Smooth Muscle	stomach
46	chr6:34358800-34360800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
47	chr6:34358800-34360800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr6:34358800-34360800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:34358800-34360800	Active TSS	Muscle Satellite Cultured Cells	--
50	chr6:34358800-34360800	Active TSS	Fetal Heart	heart

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