Variant report

Variant	rs16868759
Chromosome Location	chr6:36955524-36955525
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:36930754..36936310-chr6:36950773..36956274,7	MCF-7	breast:
2	chr6:36952074..36956895-chr6:36967839..36978010,11	MCF-7	breast:
3	chr6:36852278..36855515-chr6:36952430..36957026,4	MCF-7	breast:
4	chr6:36852138..36856054-chr6:36953606..36956862,5	K562	blood:
5	chr6:36889896..36892689-chr6:36954303..36956712,2	MCF-7	breast:
6	chr6:36724390..36726745-chr6:36953555..36956553,2	K562	blood:
7	chr6:36929829..36933522-chr6:36953197..36956380,5	MCF-7	breast:
8	chr6:36936791..36939065-chr6:36954271..36955828,2	MCF-7	breast:
9	chr6:36934908..36939247-chr6:36952489..36955593,6	MCF-7	breast:
10	chr6:36954231..36957100-chr6:36969352..36972549,3	K562	blood:
11	chr6:36838369..36843263-chr6:36951921..36955568,5	MCF-7	breast:
12	chr6:36954227..36956971-chr6:36992385..36994779,2	K562	blood:

No data

No data

No data

Variant related genes	Relation type
ENSG00000137409	Chromatin interaction
ENSG00000124772	Chromatin interaction
ENSG00000137168	Chromatin interaction
ENSG00000164530	Chromatin interaction
ENSG00000198663	Chromatin interaction
ENSG00000146192	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 5 )

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

rs_ID	r²[population]
rs11751297	0.83[AMR][1000 genomes]
rs11759019	0.81[EUR][1000 genomes]
rs1724104	0.82[CHB][hapmap]
rs3798475	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3798477	1.00[CEU][hapmap];0.88[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6930271	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs726819	1.00[CEU][hapmap];0.88[GIH][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9368978	0.85[CHB][hapmap]
rs9380629	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9380632	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv885815	chr6:36915906-36979583	Active TSS Flanking Active TSS Genic enhancers Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv5263	chr6:36941625-36972109	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers 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	22 gene(s)	inside rSNPs	diseases
5	nsv518386	chr6:36942746-37037670	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv602952	chr6:36951210-36978745	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs16868759	FILIP1	trans	lymphoblastoid	seeQTL
rs16868759	ZFAND3	cis	parietal	SCAN
rs16868759	PI16	cis	parietal	SCAN
rs16868759	PI16	cis	cerebellum	SCAN
rs16868759	TCP11	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36955000-36955600	Enhancers	Primary B cells from cord blood	blood
2	chr6:36955200-36955600	Enhancers	Brain Germinal Matrix	brain
3	chr6:36955200-36955800	Enhancers	Primary T cells from cord blood	blood
4	chr6:36955200-36955800	Enhancers	K562	blood
5	chr6:36955200-36956000	Enhancers	Colon Smooth Muscle	Colon
6	chr6:36955200-36956200	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:36955200-36956600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:36955200-36956800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:36955200-36959200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:36955400-36955800	Enhancers	Brain Anterior Caudate	brain
11	chr6:36955400-36955800	Enhancers	Duodenum Smooth Muscle	Duodenum
12	chr6:36955400-36955800	Enhancers	Rectal Smooth Muscle	rectum
13	chr6:36955400-36955800	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr6:36955400-36956000	Enhancers	Fetal Heart	heart
15	chr6:36955400-36957000	Weak transcription	Hela-S3	cervix
16	chr6:36955400-36965200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:36955400-36965400	Weak transcription	Right Atrium	heart

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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