Variant report

Variant	rs16844152
Chromosome Location	chr4:3318726-3318727
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:3313691..3315638-chr4:3318418..3320461,2	K562	blood:
2	chr4:3312095..3315185-chr4:3316131..3319628,4	MCF-7	breast:
3	chr4:3316605..3318231-chr4:3318399..3321148,2	K562	blood:
4	chr4:3293485..3295010-chr4:3317459..3319780,2	K562	blood:
5	chr4:3316773..3319078-chr4:3532523..3535417,2	K562	blood:

Variant related genes	Relation type
ENSG00000159788	Chromatin interaction
ENSG00000248840	Chromatin interaction
ENSG00000163956	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1120898	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13110866	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13120043	1.00[CEU][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13126960	0.91[ASN][1000 genomes]
rs13129052	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13130998	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13133859	1.00[CEU][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13150521	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16844124	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16844147	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16844209	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs34004517	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34052318	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34067673	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34628563	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34780636	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34849917	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35150150	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35450001	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35720136	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35825779	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363129	1.00[MEX][hapmap]
rs57904538	1.00[ASN][1000 genomes]
rs61211078	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61748736	0.90[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71608266	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71608267	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71608268	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71608278	0.90[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs878004	0.90[ASN][1000 genomes]
rs994425	1.00[CHB][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs994426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv998290	chr4:3176454-3355758	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv878455	chr4:3215835-3344891	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv878456	chr4:3215835-3467519	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv428106	chr4:3226182-3752322	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv878461	chr4:3270488-3339038	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
8	nsv593440	chr4:3283422-3339038	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv461165	chr4:3283422-3342137	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
10	nsv593441	chr4:3283422-3342137	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
11	nsv966506	chr4:3308550-3320391	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
12	nsv878462	chr4:3311548-3505448	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
13	nsv1007847	chr4:3317904-3527357	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
14	nsv537001	chr4:3317904-3527357	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3301200-3350000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr4:3306600-3320600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr4:3307000-3320600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr4:3307200-3327000	Weak transcription	Fetal Kidney	kidney
5	chr4:3307400-3325600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr4:3307400-3326800	Weak transcription	A549	lung
7	chr4:3307600-3322200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr4:3307600-3323000	Weak transcription	NH-A	brain
9	chr4:3307600-3323600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr4:3307800-3319000	Weak transcription	Colon Smooth Muscle	Colon
11	chr4:3308000-3319800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr4:3308000-3322800	Weak transcription	NHDF-Ad	bronchial
13	chr4:3308000-3323600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr4:3308000-3323800	Weak transcription	Osteobl	bone
15	chr4:3308000-3326000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr4:3308000-3327000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr4:3308200-3319800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:3308200-3320400	Weak transcription	Fetal Heart	heart
19	chr4:3308200-3323200	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr4:3308400-3320200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr4:3308400-3321400	Weak transcription	Stomach Mucosa	stomach
22	chr4:3308600-3319000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr4:3308600-3319400	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr4:3308600-3322600	Weak transcription	Brain Substantia Nigra	brain
25	chr4:3308600-3323000	Weak transcription	Brain Angular Gyrus	brain
26	chr4:3309000-3322000	Weak transcription	Right Atrium	heart
27	chr4:3309000-3327200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr4:3309600-3319000	Weak transcription	Brain Hippocampus Middle	brain
29	chr4:3309800-3319800	Weak transcription	Brain Cingulate Gyrus	brain
30	chr4:3310800-3321600	Weak transcription	Fetal Brain Male	brain
31	chr4:3311200-3321400	Weak transcription	Fetal Thymus	thymus
32	chr4:3313000-3319000	Weak transcription	Gastric	stomach
33	chr4:3314200-3319200	Weak transcription	Colonic Mucosa	Colon
34	chr4:3314200-3319800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr4:3314200-3322200	Strong transcription	Fetal Stomach	stomach
36	chr4:3314200-3326600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr4:3314400-3327400	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr4:3314400-3328000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr4:3314400-3348200	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr4:3315000-3320200	Strong transcription	Fetal Intestine Small	intestine
41	chr4:3315000-3322400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr4:3315400-3318800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr4:3315400-3326600	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr4:3315600-3322800	Weak transcription	Dnd41	blood
45	chr4:3316000-3321000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr4:3316200-3322000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr4:3316400-3319400	Strong transcription	Fetal Muscle Trunk	muscle
48	chr4:3316400-3321000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr4:3316600-3320000	Strong transcription	Brain Germinal Matrix	brain
50	chr4:3316600-3320000	Strong transcription	Fetal Brain Female	brain

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