Variant report

Variant	rs7174399
Chromosome Location	chr15:79266735-79266736
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr15:79266649-79266920	K562	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr15:79264133..79265722-chr15:79266216..79269027,2	MCF-7	breast:
2	chr15:79265663..79267693-chr15:79269645..79272291,2	MCF-7	breast:
3	chr15:79264746..79267610-chr15:79273645..79276620,3	K562	blood:
4	chr15:79265663..79268823-chr15:79268915..79271641,3	K562	blood:
5	chr15:79264746..79267610-chr15:79274625..79276620,2	K562	blood:
6	chr15:79264809..79266963-chr15:79270255..79272763,3	K562	blood:
7	chr15:79258673..79264077-chr15:79264289..79268507,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000177699	TF binding region
ENSG00000058335	Chromatin interaction
ENSG00000177699	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1867315	0.82[CHD][hapmap]
rs2230518	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28566661	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28758422	1.00[ASN][1000 genomes]
rs28774671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743196	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3743197	0.88[ASW][hapmap];0.94[CEU][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3743198	0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3743200	0.94[CEU][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3743201	0.88[ASW][hapmap];0.94[CEU][hapmap];0.93[CHD][hapmap];0.96[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.89[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3803544	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3825928	0.94[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56060107	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6495356	0.94[CEU][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7167720	0.80[AMR][1000 genomes]
rs7168964	0.93[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.80[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7173329	0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs7175590	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7175835	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026309	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026710	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8036107	0.94[CEU][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[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	esv33573	chr15:79053484-79293881	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv904433	chr15:79243571-79310288	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7174399	MORF4L1	cis	cerebellum	SCAN
rs7174399	PSTPIP1	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79244000-79288000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr15:79261200-79280400	Weak transcription	Esophagus	oesophagus
3	chr15:79262600-79269000	Weak transcription	Duodenum Mucosa	Duodenum
4	chr15:79263600-79269000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:79263600-79271200	Weak transcription	Lung	lung
6	chr15:79263800-79271200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:79264000-79268800	Weak transcription	Brain Substantia Nigra	brain
8	chr15:79264000-79271400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr15:79264200-79269600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:79264200-79269800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr15:79264200-79269800	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:79264200-79271400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:79264200-79271800	Weak transcription	Brain Angular Gyrus	brain
14	chr15:79264400-79269200	Weak transcription	HepG2	liver
15	chr15:79265800-79271000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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