Variant report

Variant	rs16846674
Chromosome Location	chr1:227110919-227110920
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12564262	0.91[ASN][1000 genomes]
rs12564719	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs12565820	0.91[ASN][1000 genomes]
rs12566367	0.91[ASN][1000 genomes]
rs12566572	0.91[ASN][1000 genomes]
rs2077734	1.00[CHB][hapmap];0.91[GIH][hapmap];0.91[ASN][1000 genomes]
rs55828534	0.84[EUR][1000 genomes]
rs56070668	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6659010	0.84[EUR][1000 genomes]
rs6659013	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003656	chr1:227034700-227559665	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv535318	chr1:227034700-227559665	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16846674	HIST3H2BB	cis	cerebellum	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:227083200-227126600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:227088400-227111600	Weak transcription	Spleen	Spleen
3	chr1:227088800-227111400	Weak transcription	A549	lung
4	chr1:227088800-227118600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:227092000-227111200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr1:227092000-227115200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:227092000-227118600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr1:227092200-227111600	Weak transcription	Esophagus	oesophagus
9	chr1:227092200-227116200	Weak transcription	Rectal Smooth Muscle	rectum
10	chr1:227092200-227118800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr1:227098600-227118600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr1:227102800-227119000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr1:227102800-227125800	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr1:227107000-227111000	Weak transcription	Aorta	Aorta
15	chr1:227107000-227112000	Weak transcription	Fetal Muscle Leg	muscle
16	chr1:227107600-227111200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr1:227108000-227111400	Weak transcription	Right Ventricle	heart
18	chr1:227108200-227121200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr1:227108600-227111400	Weak transcription	Gastric	stomach
20	chr1:227108800-227111200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr1:227109600-227111400	Weak transcription	Right Atrium	heart
22	chr1:227109600-227112000	Weak transcription	Adipose Nuclei	Adipose
23	chr1:227109600-227126600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr1:227110600-227111800	Enhancers	Pancreas	Pancrea
25	chr1:227110800-227111200	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links