Variant report

Variant	rs17022122
Chromosome Location	chr3:85012138-85012139
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:85011548..85014009-chr3:85014905..85018347,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10490894	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17022167	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17022179	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17022255	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41363247	1.00[AMR][1000 genomes]

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	esv3381298	chr3:84689266-85030314	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1001316	chr3:84773522-85071342	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv877091	chr3:84876250-85069287	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv482371	chr3:84880813-85031486	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv471620	chr3:84880814-85031486	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	esv1829788	chr3:84926769-85086403	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1010140	chr3:84997012-85034281	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85007200-85012400	Active TSS	Brain Inferior Temporal Lobe	brain
2	chr3:85007200-85012600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:85007600-85012200	Active TSS	Brain Anterior Caudate	brain
4	chr3:85007800-85012200	Active TSS	Brain Substantia Nigra	brain
5	chr3:85007800-85012600	Active TSS	Brain Angular Gyrus	brain
6	chr3:85011000-85012200	Active TSS	Fetal Brain Male	brain
7	chr3:85011200-85012400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:85011200-85012600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:85011200-85012600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:85011200-85013400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:85011200-85016600	Weak transcription	Psoas Muscle	Psoas
12	chr3:85011200-85016800	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr3:85011200-85016800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr3:85011400-85012200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:85011600-85012400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:85011600-85012600	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:85011600-85016800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr3:85011600-85016800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr3:85011600-85018400	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr3:85011800-85012400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:85011800-85012600	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr3:85011800-85013800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr3:85011800-85013800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:85011800-85013800	Enhancers	HUES48 Cell Line	embryonic stem cell
25	chr3:85011800-85014200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:85011800-85014400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr3:85012000-85012200	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr3:85012000-85012600	Flanking Active TSS	Brain Hippocampus Middle	brain
29	chr3:85012000-85013000	Enhancers	Brain Cingulate Gyrus	brain
30	chr3:85012000-85013000	Active TSS	Fetal Brain Female	brain
31	chr3:85012000-85016800	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links