Variant report

Variant	rs1417260
Chromosome Location	chr1:74366628-74366629
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10493525	0.91[ASN][1000 genomes]
rs12410370	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1340425	0.86[ASN][1000 genomes]
rs17094565	0.86[CHB][hapmap]
rs17094586	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17094627	0.83[ASN][1000 genomes]
rs2219141	0.86[ASN][1000 genomes]
rs2733256	1.00[EUR][1000 genomes]
rs2733257	1.00[EUR][1000 genomes]
rs2733258	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4549989	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55681160	0.86[ASN][1000 genomes]
rs61200871	0.86[ASN][1000 genomes]
rs717830	0.81[ASN][1000 genomes]
rs72685830	0.91[ASN][1000 genomes]
rs72685837	0.81[ASN][1000 genomes]
rs72685839	0.81[ASN][1000 genomes]
rs7513356	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv1398	chr1:74353390-74398380	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv2763561	chr1:74362009-74396896	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:74365200-74367200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr1:74365400-74367400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr1:74365800-74367000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr1:74365800-74367200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr1:74365800-74367600	Weak transcription	Dnd41	blood
6	chr1:74365800-74368800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr1:74365800-74368800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr1:74366000-74367000	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr1:74366000-74367200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr1:74366000-74367400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr1:74366600-74367000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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