Variant report

Variant	rs35552299
Chromosome Location	chr16:81308619-81308620
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr16:81307769..81309694-chr16:81327148..81329061,2	MCF-7	breast:
2	chr16:81308065..81311392-chr16:81404971..81409467,4	MCF-7	breast:
3	chr16:81306937..81314493-chr16:81345040..81354910,36	MCF-7	breast:
4	chr16:81307371..81310396-chr16:81356696..81360378,4	MCF-7	breast:
5	chr16:81297837..81303804-chr16:81307756..81314186,17	MCF-7	breast:
6	chr16:81305711..81315624-chr16:81344956..81353172,47	MCF-7	breast:
7	chr16:81307461..81311487-chr16:81391240..81393766,3	MCF-7	breast:
8	chr16:81298705..81303185-chr16:81306285..81312157,8	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000261609	Chromatin interaction
ENSG00000260495	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11647597	0.84[ASN][1000 genomes]
rs12449108	0.81[ASN][1000 genomes]
rs12921896	0.84[ASN][1000 genomes]
rs3803651	0.84[ASN][1000 genomes]
rs4888133	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4888134	0.88[ASN][1000 genomes]
rs7188650	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7192773	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7194812	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7499777	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8047137	0.84[ASN][1000 genomes]
rs9927546	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9931718	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv532597	chr16:81009718-81388348	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv427984	chr16:81026691-81320341	Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription 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	49 gene(s)	inside rSNPs	diseases
4	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
5	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers 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	37 gene(s)	inside rSNPs	diseases
6	nsv527288	chr16:81204188-81310947	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
7	esv2755860	chr16:81262516-81333568	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81284600-81324600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr16:81300200-81311000	Weak transcription	Brain Anterior Caudate	brain
3	chr16:81300400-81312200	Weak transcription	Right Atrium	heart
4	chr16:81300600-81310000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr16:81300600-81310000	Weak transcription	Spleen	Spleen
6	chr16:81306800-81311200	Enhancers	Placenta Amnion	Placenta Amnion
7	chr16:81306800-81311600	Enhancers	Duodenum Mucosa	Duodenum
8	chr16:81306800-81312000	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr16:81306800-81312600	Enhancers	Stomach Mucosa	stomach
10	chr16:81307000-81311400	Enhancers	Fetal Intestine Small	intestine
11	chr16:81307000-81311600	Enhancers	Fetal Intestine Large	intestine
12	chr16:81307200-81308800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr16:81307600-81313000	Enhancers	Placenta	Placenta
14	chr16:81307800-81309000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr16:81307800-81311200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr16:81308200-81309400	Enhancers	Small Intestine	intestine
17	chr16:81308200-81310000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr16:81308400-81309400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
19	chr16:81308400-81311000	Enhancers	Esophagus	oesophagus
20	chr16:81308600-81308800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr16:81308600-81308800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr16:81308600-81308800	Enhancers	Fetal Kidney	kidney
23	chr16:81308600-81309000	Enhancers	Gastric	stomach
24	chr16:81308600-81309200	Enhancers	Brain Hippocampus Middle	brain
25	chr16:81308600-81309600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr16:81308600-81311600	Enhancers	Colonic Mucosa	Colon
27	chr16:81308600-81312800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links