Variant report

Variant	rs7541440
Chromosome Location	chr1:74850056-74850057
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:74847175..74848707-chr1:74848769..74850609,2	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10890126	1.00[AFR][1000 genomes]
rs1341576	0.89[AFR][1000 genomes]
rs1358376	1.00[AFR][1000 genomes]
rs1358377	1.00[AFR][1000 genomes]
rs1361591	1.00[AFR][1000 genomes]
rs1417890	1.00[AFR][1000 genomes]
rs1527685	1.00[AFR][1000 genomes]
rs1832810	1.00[AFR][1000 genomes]
rs1868562	1.00[AFR][1000 genomes]
rs1935126	1.00[AFR][1000 genomes]
rs2091459	1.00[AFR][1000 genomes]
rs2880795	1.00[AFR][1000 genomes]
rs472315	1.00[AFR][1000 genomes]
rs489158	1.00[AFR][1000 genomes]
rs489278	1.00[AFR][1000 genomes]
rs495819	1.00[AFR][1000 genomes]
rs501159	1.00[AFR][1000 genomes]
rs501694	0.89[AFR][1000 genomes]
rs508210	1.00[AFR][1000 genomes]
rs508717	1.00[AFR][1000 genomes]
rs509849	1.00[AFR][1000 genomes]
rs509953	1.00[AFR][1000 genomes]
rs510010	1.00[AFR][1000 genomes]
rs516753	1.00[AFR][1000 genomes]
rs517095	1.00[AFR][1000 genomes]
rs519403	1.00[AFR][1000 genomes]
rs520554	1.00[AFR][1000 genomes]
rs532844	1.00[AFR][1000 genomes]
rs533783	1.00[AFR][1000 genomes]
rs536493	1.00[AFR][1000 genomes]
rs540845	1.00[AFR][1000 genomes]
rs546384	1.00[AFR][1000 genomes]
rs549521	1.00[AFR][1000 genomes]
rs553594	1.00[AFR][1000 genomes]
rs555873	1.00[AFR][1000 genomes]
rs558756	1.00[AFR][1000 genomes]
rs564254	1.00[AFR][1000 genomes]
rs570363	1.00[AFR][1000 genomes]
rs577308	1.00[AFR][1000 genomes]
rs6424580	1.00[AFR][1000 genomes]
rs6424581	1.00[AFR][1000 genomes]
rs6424588	1.00[AFR][1000 genomes]
rs6694833	1.00[AFR][1000 genomes]
rs7530846	1.00[AFR][1000 genomes]
rs7549166	1.00[AFR][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	nsv1004451	chr1:74107125-74874389	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv534999	chr1:74107125-74874389	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv522147	chr1:74338530-74983835	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1003171	chr1:74407468-75122270	Strong transcription Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv535000	chr1:74407468-75122270	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv1011308	chr1:74545016-74932777	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv1007414	chr1:74726454-74976335	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv535002	chr1:74726454-74976335	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1011745	chr1:74730942-75477618	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
10	nsv535003	chr1:74730942-75477618	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
11	nsv870654	chr1:74762198-74858724	ZNF genes & repeats Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv1010042	chr1:74798856-75001977	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv461984	chr1:74804833-74874471	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv546577	chr1:74804833-74874471	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv1002903	chr1:74831209-74993866	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr1:74845200-74851000	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr1:74845200-74860800	Weak transcription	Right Ventricle	heart
3	chr1:74847600-74851600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:74847800-74850800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr1:74848400-74850200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:74849200-74850400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr1:74849600-74850800	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr1:74849600-74851400	Enhancers	Fetal Heart	heart
9	chr1:74849800-74850200	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr1:74849800-74850400	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr1:74849800-74850400	Enhancers	Brain Germinal Matrix	brain
12	chr1:74849800-74850800	Enhancers	Fetal Brain Male	brain
13	chr1:74850000-74850400	Enhancers	HUES6 Cell Line	embryonic stem cell

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