Variant report

Variant	rs10258271
Chromosome Location	chr7:127766400-127766401
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:127766104..127769053-chr7:127772812..127775093,2	MCF-7	breast:
2	chr7:127753827..127756427-chr7:127766047..127767569,2	K562	blood:

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10954167	0.82[EUR][1000 genomes]
rs10954168	0.81[EUR][1000 genomes]
rs11979599	0.82[EUR][1000 genomes]
rs1362897	1.00[ASW][hapmap]
rs17676986	1.00[ASW][hapmap]
rs17735366	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs322734	0.83[EUR][1000 genomes]
rs3808053	0.82[EUR][1000 genomes]
rs3808057	0.87[YRI][hapmap]
rs3808058	1.00[ASW][hapmap]
rs4728088	0.82[EUR][1000 genomes]
rs4731400	0.85[EUR][1000 genomes]
rs4731403	0.82[EUR][1000 genomes]
rs4731405	0.82[EUR][1000 genomes]
rs57463770	0.96[EUR][1000 genomes]
rs59096474	0.82[EUR][1000 genomes]
rs60087663	0.93[EUR][1000 genomes]
rs6948493	1.00[ASW][hapmap]
rs73226605	0.85[EUR][1000 genomes]
rs73226606	0.85[EUR][1000 genomes]
rs73226613	0.83[EUR][1000 genomes]
rs73238099	0.82[EUR][1000 genomes]
rs73238100	0.82[EUR][1000 genomes]
rs73239707	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73239713	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73239718	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73239720	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7790439	0.85[EUR][1000 genomes]
rs7790858	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022385	chr7:127246656-127971194	Weak transcription Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv539120	chr7:127246656-127971194	Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	esv3377181	chr7:127765666-127767764	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2591981	chr7:127765924-127767382	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv8422	chr7:127766222-127766853	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv2306945	chr7:127766232-127766933	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv3476750	chr7:127766293-127766827	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv3523425	chr7:127766318-127766835	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3523422	chr7:127766323-127766818	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv3523421	chr7:127766342-127766763	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
11	esv3476752	chr7:127766349-127766800	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv3476754	chr7:127766350-127766797	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv3476749	chr7:127766362-127766754	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv3523426	chr7:127766367-127766789	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
15	esv3523424	chr7:127766370-127766773	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
16	esv3446114	chr7:127766387-127766759	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
17	esv3476751	chr7:127766399-127766736	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10258271	LRRC4	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:127762400-127772000	Weak transcription	Right Atrium	heart
2	chr7:127764200-127769000	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr7:127766000-127766400	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr7:127766200-127769200	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr7:127766400-127768800	Weak transcription	Primary neutrophils fromperipheralblood	blood

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