Variant report

Variant	rs73405662
Chromosome Location	chr6:34428950-34428951
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	CTCF	chr6:34428840-34428990	HepG2	liver:	n/a	n/a
2	SIN3A	chr6:34428671-34429240	H1-hESC	embryonic stem cell:	n/a	chr6:34428887-34428895
3	USF1	chr6:34428735-34429273	H1-hESC	embryonic stem cell:	n/a	n/a
4	FOS	chr6:34428573-34429170	MCF10A-Er-Src	breast:	n/a	chr6:34428730-34428738 chr6:34428728-34428735 chr6:34428731-34428738
5	USF1	chr6:34428895-34429278	H1-hESC	embryonic stem cell:	n/a	n/a
6	MAX	chr6:34428705-34429106	H1-hESC	embryonic stem cell:	n/a	chr6:34428730-34428739 chr6:34428729-34428738
7	USF2	chr6:34428878-34429225	H1-hESC	embryonic stem cell:	n/a	n/a
8	USF1	chr6:34428895-34429270	K562	blood:	n/a	n/a
9	MAX	chr6:34428634-34429065	H1-hESC	embryonic stem cell:	n/a	chr6:34428730-34428739 chr6:34428729-34428738
10	FOS	chr6:34428573-34429150	MCF10A-Er-Src	breast:	n/a	chr6:34428730-34428738 chr6:34428728-34428735 chr6:34428731-34428738

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:34390709..34393281-chr6:34426024..34429452,3	K562	blood:
2	chr6:34213313..34215727-chr6:34426612..34429528,2	K562	blood:

Variant related genes	Relation type
PACSIN1	TF binding region
ENSG00000124614	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs73405660	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	esv2758046	chr6:34382492-34714677	Genic enhancers Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	esv2759418	chr6:34382492-34714677	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv885785	chr6:34404636-34874002	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv462904	chr6:34416388-34493012	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
7	nsv602903	chr6:34416388-34493012	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
8	nsv885786	chr6:34426884-34542662	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34394400-34433200	Weak transcription	Right Atrium	heart
2	chr6:34425000-34429000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr6:34425600-34429000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:34426000-34430400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:34426000-34430400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:34426400-34430000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:34426600-34429400	Weak transcription	K562	blood
8	chr6:34426600-34430200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:34428000-34429000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:34428000-34429200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:34428000-34429200	Enhancers	NHEK	skin
12	chr6:34428000-34430200	Weak transcription	Liver	Liver
13	chr6:34428000-34432200	Enhancers	H1 Cell Line	embryonic stem cell
14	chr6:34428200-34430000	Weak transcription	HepG2	liver
15	chr6:34428200-34430400	Weak transcription	Stomach Mucosa	stomach
16	chr6:34428600-34429200	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr6:34428600-34429200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr6:34428600-34429200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:34428600-34429200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:34428600-34429200	Enhancers	HMEC	breast
21	chr6:34428600-34429400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:34428800-34429000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr6:34428800-34429000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:34428800-34429000	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr6:34428800-34429000	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr6:34428800-34429200	Enhancers	H9 Cell Line	embryonic stem cell
27	chr6:34428800-34429400	Enhancers	HUVEC	blood vessel
28	chr6:34428800-34429800	Weak transcription	A549	lung
29	chr6:34428800-34433200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links