Variant report

Variant	rs2844677
Chromosome Location	chr6:30955359-30955360
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30949652..30953663-chr6:30954091..30959809,5	K562	blood:
2	chr6:30954105..30955673-chr6:30975592..30977694,2	K562	blood:

Variant related genes	Relation type
ENSG00000204544	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs2249168	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2252921	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2252925	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2252926	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2253417	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2256514	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2263305	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2263306	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2429295	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2508016	0.90[AFR][1000 genomes]
rs2517400	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2517401	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2517402	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2517404	0.83[ASN][1000 genomes]
rs2517406	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2517408	0.93[AFR][1000 genomes]
rs2517409	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2517411	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2517412	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2517415	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2517416	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2523907	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2523908	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2523909	0.84[ASN][1000 genomes]
rs2523910	0.84[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2523911	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2523912	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2523913	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2523915	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523916	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523918	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523919	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523920	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523921	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523923	0.90[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2523924	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523925	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523926	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2523930	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2530687	0.84[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2530688	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2530689	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2530690	0.97[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2530691	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2530694	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2530695	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2530697	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2530698	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2530711	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2530716	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2530717	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2530718	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2844666	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2844667	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2844671	0.97[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2844673	0.97[AFR][1000 genomes]
rs2844675	0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2844676	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs3131928	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs3131929	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs380808	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs436376	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7765796	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7766113	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9262435	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9262436	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9262437	0.86[AFR][1000 genomes]
rs9262445	0.90[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9262446	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs9262447	0.86[AFR][1000 genomes]
rs9262450	0.89[ASN][1000 genomes]
rs9262451	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs9262456	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs9262458	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
2	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
4	nsv1015372	chr6:30704734-31582152	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
5	nsv538173	chr6:30704734-31582152	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
6	nsv1031677	chr6:30857542-30972865	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv462743	chr6:30905313-30957766	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv601483	chr6:30905313-30957766	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv462744	chr6:30920890-30955681	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv601484	chr6:30920890-30955681	Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	esv3358044	chr6:30940552-31000175	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	esv1805090	chr6:30942284-30966453	Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1023108	chr6:30944982-30990490	Enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	esv3389618	chr6:30954702-30955392	Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv5663	chr6:30954770-30955458	Active TSS Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2844677	CCHCR1	cis	lymphoblastoid	seeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30950400-30958200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:30950600-30958200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:30950800-30955800	Active TSS	Esophagus	oesophagus
4	chr6:30950800-30958400	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr6:30950800-30972200	Weak transcription	Right Atrium	heart
6	chr6:30951400-30956800	Weak transcription	Gastric	stomach
7	chr6:30951600-30955800	Weak transcription	Stomach Mucosa	stomach

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