Variant report

Variant	rs13292940
Chromosome Location	chr9:136924373-136924374
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	PBX3	chr9:136923933-136924435	SK-N-SH	brain:	n/a	n/a
2	FOS	chr9:136923961-136924390	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:136907649..136910624-chr9:136921373..136924685,3	K562	blood:
2	chr9:136891890..136894659-chr9:136923791..136925347,2	K562	blood:
3	chr9:136912065..136915814-chr9:136924297..136928714,4	K562	blood:
4	chr9:136914230..136916308-chr9:136922322..136925797,3	K562	blood:
5	chr9:136913831..136916056-chr9:136922340..136924397,3	MCF-7	breast:
6	chr9:136905250..136907421-chr9:136923049..136925232,2	MCF-7	breast:
7	chr9:136917640..136920002-chr9:136924313..136927481,4	K562	blood:
8	chr9:136924138..136926456-chr9:136992435..136994795,2	MCF-7	breast:

No data

Variant related genes	Relation type
BRD3	TF binding region
ENSG00000235106	Chromatin interaction
ENSG00000235138	Chromatin interaction
ENSG00000169925	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10993883	1.00[CEU][hapmap]
rs12337634	1.00[CEU][hapmap]
rs13292157	1.00[EUR][1000 genomes]
rs13296209	1.00[EUR][1000 genomes]
rs13297632	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs2427957	1.00[CEU][hapmap]
rs2427958	1.00[CEU][hapmap]
rs34130575	1.00[EUR][1000 genomes]
rs34200213	1.00[EUR][1000 genomes]
rs34293853	1.00[EUR][1000 genomes]
rs34389248	1.00[EUR][1000 genomes]
rs35741216	1.00[EUR][1000 genomes]
rs7027238	1.00[EUR][1000 genomes]
rs71505268	1.00[EUR][1000 genomes]
rs71505269	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894125	chr9:136723520-136931957	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv831748	chr9:136788484-136944326	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS 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	30 gene(s)	inside rSNPs	diseases
3	nsv894132	chr9:136813341-136950691	Active TSS Genic enhancers Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv428226	chr9:136825035-136994606	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv894135	chr9:136839840-136927657	Strong transcription Enhancers Genic enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv894136	chr9:136839840-136938961	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv894137	chr9:136839840-136950691	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	nsv894138	chr9:136839840-137093168	Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
9	nsv825148	chr9:136848471-137025632	Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
10	nsv894139	chr9:136863932-136950691	Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
11	nsv894140	chr9:136865879-136927657	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
12	nsv894141	chr9:136865879-136938961	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
13	nsv466627	chr9:136870787-136938961	Enhancers Flanking Active TSS Genic enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
14	nsv615774	chr9:136870787-136938961	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
15	nsv1048571	chr9:136872166-137265444	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
16	nsv894145	chr9:136874066-136925451	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
17	nsv894146	chr9:136874066-136938961	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
18	nsv894147	chr9:136874066-136950691	Enhancers Genic enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
19	nsv894148	chr9:136874066-137093168	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
20	nsv894149	chr9:136874158-136950691	Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
21	nsv894150	chr9:136887757-136944827	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer 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	17 gene(s)	inside rSNPs	diseases
22	nsv894151	chr9:136887757-137397609	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
23	nsv466629	chr9:136893867-136938961	Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
24	nsv615779	chr9:136893867-136938961	Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
25	esv1806029	chr9:136906752-136933825	Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
26	nsv430110	chr9:136909280-136964450	Weak transcription Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
27	nsv894152	chr9:136921015-136950691	Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:136899200-136924600	Weak transcription	GM12878-XiMat	blood
2	chr9:136903600-136927000	Strong transcription	Thymus	Thymus
3	chr9:136915600-136925000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr9:136916600-136925000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr9:136917000-136930800	Weak transcription	K562	blood
6	chr9:136917800-136925600	Genic enhancers	Spleen	Spleen
7	chr9:136918200-136929000	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr9:136918200-136930800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:136918400-136926200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:136918400-136926800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:136918400-136927800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr9:136918600-136924600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr9:136918600-136930600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr9:136918800-136925600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr9:136918800-136930000	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr9:136918800-136930800	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr9:136919000-136925800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:136919000-136929000	Enhancers	Psoas Muscle	Psoas
19	chr9:136919200-136928400	Enhancers	Pancreas	Pancrea
20	chr9:136919200-136930800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr9:136919400-136924400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr9:136919400-136925000	Enhancers	Right Atrium	heart
23	chr9:136919400-136930600	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr9:136919600-136924800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr9:136919800-136927600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr9:136919800-136930800	Enhancers	Primary T cells fromperipheralblood	blood
27	chr9:136920000-136930800	Enhancers	Ovary	ovary
28	chr9:136920200-136924400	Enhancers	Fetal Intestine Large	intestine
29	chr9:136920200-136924800	Enhancers	Brain Hippocampus Middle	brain
30	chr9:136920400-136924800	Enhancers	Brain Anterior Caudate	brain
31	chr9:136920400-136925000	Enhancers	Fetal Heart	heart
32	chr9:136920400-136928200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr9:136920400-136928200	Enhancers	Right Ventricle	heart
34	chr9:136920400-136929200	Genic enhancers	Fetal Intestine Small	intestine
35	chr9:136920400-136930800	Enhancers	Fetal Brain Male	brain
36	chr9:136920400-136930800	Enhancers	Left Ventricle	heart
37	chr9:136920600-136925200	Enhancers	NH-A	brain
38	chr9:136920600-136925400	Enhancers	Brain Angular Gyrus	brain
39	chr9:136920600-136926600	Enhancers	Brain Substantia Nigra	brain
40	chr9:136920600-136927400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr9:136920600-136928200	Weak transcription	Dnd41	blood
42	chr9:136920600-136930800	Enhancers	Placenta	Placenta
43	chr9:136920800-136925200	Enhancers	Fetal Lung	lung
44	chr9:136920800-136925600	Weak transcription	Primary T cells from cord blood	blood
45	chr9:136920800-136926800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr9:136921200-136924800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr9:136921600-136924800	Enhancers	Brain Cingulate Gyrus	brain
48	chr9:136921600-136925200	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr9:136921600-136928800	Enhancers	Colon Smooth Muscle	Colon
50	chr9:136921800-136926000	Genic enhancers	Fetal Muscle Trunk	muscle

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