Variant report

Variant	rs78882296
Chromosome Location	chr9:98267595-98267596
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr9:98267340-98267783	H1-hESC	embryonic stem cell:	n/a	n/a
2	MXI1	chr9:98267312-98274672	IMR90	lung:	n/a	chr9:98273104-98273113 chr9:98269404-98269413
3	CTCF	chr9:98267336-98268145	K562	blood:	n/a	n/a
4	SIN3A	chr9:98266518-98275316	H1-hESC	embryonic stem cell:	n/a	chr9:98268478-98268491 chr9:98273259-98273270 chr9:98273104-98273113 chr9:98271212-98271225 chr9:98270756-98270767 chr9:98271270-98271279 chr9:98272257-98272268 chr9:98273102-98273111 chr9:98271251-98271264
5	CHD1	chr9:98267470-98268834	H1-hESC	embryonic stem cell:	n/a	n/a
6	SREBP1	chr9:98267175-98269407	GM12878	blood:	n/a	n/a
7	REST	chr9:98267183-98274539	H1-neurons	neurons:	n/a	chr9:98270976-98270989 chr9:98268273-98268286 chr9:98271222-98271240 chr9:98270100-98270109 chr9:98270699-98270717 chr9:98271458-98271466 chr9:98268565-98268575 chr9:98271242-98271255 chr9:98269758-98269778
8	POU5F1	chr9:98267344-98267724	H1-hESC	embryonic stem cell:	n/a	n/a
9	MXI1	chr9:98267369-98275571	SK-N-SH	brain:	n/a	chr9:98273104-98273113 chr9:98269404-98269413
10	MYC	chr9:98267473-98270521	K562	blood:	n/a	chr9:98269402-98269412 chr9:98268933-98268942
11	JUND	chr9:98267471-98268601	H1-hESC	embryonic stem cell:	n/a	chr9:98268055-98268069
12	CHD1	chr9:98266325-98275163	IMR90	lung:	n/a	chr9:98271086-98271096 chr9:98274530-98274540

No.	Distal block	Cell Line	Cell type
1	chr9:98188569..98190136-chr9:98266994..98268557,2	MCF-7	breast:
2	chr9:98243853..98250190-chr9:98264163..98273969,14	MCF-7	breast:
3	chr9:98078830..98081414-chr9:98266391..98270806,3	MCF-7	breast:
4	chr9:98246124..98248586-chr9:98264978..98268110,3	K562	blood:
5	chr9:98187685..98192036-chr9:98266677..98274746,12	MCF-7	breast:
6	chr9:98187278..98190652-chr9:98265637..98273315,6	K562	blood:
7	chr9:98210232..98214386-chr9:98264282..98269915,4	K562	blood:
8	chr9:98253772..98257280-chr9:98266534..98270044,4	K562	blood:
9	chr9:98266714..98268433-chr9:98632145..98634773,2	MCF-7	breast:
10	chr9:98262143..98268122-chr9:98269863..98275996,9	MCF-7	breast:
11	chr9:98187644..98190286-chr9:98266151..98268622,2	K562	blood:

Variant related genes	Relation type
ENSG00000271155	TF binding region
PTCH1	TF binding region
ENSG00000158169	Chromatin interaction
ENSG00000185920	Chromatin interaction
ENSG00000271314	Chromatin interaction
ENSG00000237857	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv430083	chr9:98204245-98445645	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv824994	chr9:98239963-98314431	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv824995	chr9:98243455-98326547	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv824996	chr9:98245375-98283861	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	esv3327711	chr9:98266981-98273279	Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	esv3403378	chr9:98267156-98269704	Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98243000-98267800	Weak transcription	Aorta	Aorta
2	chr9:98262800-98267600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr9:98263000-98267800	Weak transcription	Placenta	Placenta
4	chr9:98263000-98267800	Weak transcription	Lung	lung
5	chr9:98264000-98267600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr9:98264600-98268000	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr9:98264600-98268000	Weak transcription	Gastric	stomach
8	chr9:98265200-98267600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr9:98265600-98267800	Weak transcription	Fetal Muscle Trunk	muscle
10	chr9:98265800-98268600	Weak transcription	Stomach Mucosa	stomach
11	chr9:98265800-98271600	Active TSS	Rectal Mucosa Donor 29	rectum
12	chr9:98266400-98267600	Flanking Active TSS	H1 Cell Line	embryonic stem cell
13	chr9:98266400-98267600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
14	chr9:98266400-98267600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr9:98266400-98267600	Enhancers	Liver	Liver
16	chr9:98266400-98267600	Enhancers	Fetal Muscle Leg	muscle
17	chr9:98266400-98267600	Enhancers	HMEC	breast
18	chr9:98266400-98267800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr9:98266400-98267800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr9:98266400-98267800	Enhancers	Colon Smooth Muscle	Colon
21	chr9:98266400-98268000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr9:98266400-98268000	Transcr. at gene 5' and 3'	Fetal Lung	lung
23	chr9:98266400-98271600	Active TSS	Rectal Mucosa Donor 31	rectum
24	chr9:98266600-98267600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
25	chr9:98266600-98267600	Flanking Active TSS	HepG2	liver
26	chr9:98266600-98267600	Enhancers	NHEK	skin
27	chr9:98266600-98267600	Enhancers	Osteobl	bone
28	chr9:98266600-98267800	Enhancers	Adipose Nuclei	Adipose
29	chr9:98266600-98267800	Flanking Active TSS	Brain Substantia Nigra	brain
30	chr9:98266600-98267800	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr9:98266600-98267800	Flanking Active TSS	K562	blood
32	chr9:98266600-98268000	Transcr. at gene 5' and 3'	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:98266600-98268000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:98266600-98268000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
35	chr9:98266600-98275000	Active TSS	H9 Cell Line	embryonic stem cell
36	chr9:98266800-98267800	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
37	chr9:98266800-98267800	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
38	chr9:98266800-98267800	Flanking Active TSS	Brain Germinal Matrix	brain
39	chr9:98266800-98268600	Active TSS	Colonic Mucosa	Colon
40	chr9:98266800-98270000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr9:98267000-98267600	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
42	chr9:98267000-98267600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
43	chr9:98267000-98267600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr9:98267000-98267600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr9:98267000-98267600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr9:98267000-98267800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr9:98267000-98267800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr9:98267000-98267800	Flanking Active TSS	Brain Angular Gyrus	brain
49	chr9:98267000-98267800	Flanking Active TSS	Brain Anterior Caudate	brain
50	chr9:98267000-98267800	Flanking Active TSS	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links