Variant report

Variant	rs55956116
Chromosome Location	chr6:44938959-44938960
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs55820649	0.94[AFR][1000 genomes]
rs56007545	0.94[AFR][1000 genomes]
rs56199424	0.94[AFR][1000 genomes]
rs56200314	0.81[AFR][1000 genomes]
rs56288515	0.94[AFR][1000 genomes]
rs56907075	0.94[AFR][1000 genomes]
rs57999007	0.81[AFR][1000 genomes]
rs58237919	0.94[AFR][1000 genomes]
rs59048925	0.94[AFR][1000 genomes]
rs59227402	0.94[AFR][1000 genomes]
rs59994313	0.94[AFR][1000 genomes]
rs73735260	0.94[AFR][1000 genomes]
rs73735264	0.94[AFR][1000 genomes]
rs73735269	0.94[AFR][1000 genomes]
rs73735272	0.81[AFR][1000 genomes]
rs73735273	0.81[AFR][1000 genomes]
rs73735288	0.81[AFR][1000 genomes]
rs73735289	0.94[AFR][1000 genomes]
rs73735299	0.94[AFR][1000 genomes]
rs73735301	0.94[AFR][1000 genomes]
rs73737814	0.94[AFR][1000 genomes]
rs73737820	0.94[AFR][1000 genomes]
rs73737824	0.94[AFR][1000 genomes]
rs73737829	0.81[AFR][1000 genomes]
rs73737832	0.81[AFR][1000 genomes]
rs73737854	0.81[AFR][1000 genomes]
rs73737861	0.81[AFR][1000 genomes]
rs73737868	0.81[AFR][1000 genomes]
rs73737874	0.81[AFR][1000 genomes]
rs73737875	0.81[AFR][1000 genomes]
rs73737879	0.81[AFR][1000 genomes]
rs73737884	0.81[AFR][1000 genomes]
rs73737889	0.81[AFR][1000 genomes]
rs73737897	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885861	chr6:44837356-45043618	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1028393	chr6:44875558-45822335	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv538211	chr6:44875558-45822335	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv1024370	chr6:44878053-45251451	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	esv2758051	chr6:44879791-45056758	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv2759423	chr6:44879791-45056758	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv885862	chr6:44890760-45083966	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv885863	chr6:44890760-45083966	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv885864	chr6:44890760-45198796	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
10	nsv462938	chr6:44909515-45008779	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv470817	chr6:44909515-45008779	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv603007	chr6:44909515-45008779	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1023018	chr6:44925393-45152912	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv538212	chr6:44925393-45152912	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44919600-44943200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:44934000-44939800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:44935200-44940200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:44936400-44939000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr6:44937400-44942400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr6:44937400-44942800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:44937800-44940000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr6:44937800-44940200	Weak transcription	Dnd41	blood
9	chr6:44937800-44941800	Weak transcription	Fetal Heart	heart
10	chr6:44937800-44943400	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr6:44938000-44940000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr6:44938200-44943600	Weak transcription	Primary T cells from cord blood	blood
13	chr6:44938800-44943400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links