Variant report

Variant	rs6432202
Chromosome Location	chr2:11618522-11618523
allele	A/C
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:88547837..88549601-chr2:11616792..11619534,2	MCF-7	breast:
2	chr2:11617751..11618679-chr2:11724102..11725025,9	K562	blood:
3	chr2:11272478..11273372-chr2:11618139..11618660,2	K562	blood:
4	chr2:11271218..11272974-chr2:11617501..11619689,2	MCF-7	breast:
5	chr2:11617820..11619664-chr2:11828813..11830346,2	MCF-7	breast:
6	chr2:11617839..11618544-chr2:11722552..11723470,3	MCF-7	breast:
7	chr2:11617635..11618699-chr2:11722537..11723549,3	MCF-7	breast:
8	chr2:11617716..11618678-chr2:11820911..11821826,2	K562	blood:
9	chr2:11617734..11619010-chr2:11821851..11822584,4	K562	blood:
10	chr2:11616342..11619507-chr2:11787537..11789523,3	MCF-7	breast:
11	chr2:11617751..11618646-chr2:11724097..11725050,5	MCF-7	breast:
12	chr2:11618076..11618657-chr2:11724475..11725022,2	MCF-7	breast:
13	chr2:11617909..11619476-chr2:11722476..11723331,8	K562	blood:

No data

No data

No data

Variant related genes	Relation type
ENSG00000150873	Chromatin interaction
ENSG00000239899	Chromatin interaction
ENSG00000145063	Chromatin interaction
ENSG00000228496	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10169987	1.00[CHB][hapmap]
rs10205078	1.00[CHB][hapmap]
rs12165170	1.00[CHB][hapmap]
rs13388093	1.00[CHB][hapmap]
rs13395155	1.00[CHB][hapmap]
rs13407457	1.00[CHB][hapmap]
rs13430148	1.00[CHB][hapmap]
rs1595018	1.00[CHB][hapmap]
rs16857565	1.00[CHB][hapmap]
rs2043542	1.00[CHB][hapmap]
rs4668729	1.00[CHB][hapmap]
rs6719003	1.00[CHB][hapmap]
rs6719009	1.00[CHB][hapmap]
rs6729306	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73917221	0.87[EUR][1000 genomes];1.00[ASN][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	nsv1010506	chr2:11430965-12057286	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv535585	chr2:11430965-12057286	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6432202	NAP1L2	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:11607000-11621200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:11607200-11622400	Weak transcription	Spleen	Spleen
3	chr2:11614000-11618600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:11614600-11618800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:11614800-11618600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr2:11614800-11620400	Weak transcription	Fetal Muscle Leg	muscle
7	chr2:11617800-11618600	Enhancers	Brain Anterior Caudate	brain
8	chr2:11618200-11618600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
9	chr2:11618200-11618800	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr2:11618200-11622400	Enhancers	HepG2	liver
11	chr2:11618400-11619200	Enhancers	Brain Cingulate Gyrus	brain
12	chr2:11618400-11620800	Enhancers	Ovary	ovary
13	chr2:11618400-11621000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr2:11618400-11621200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr2:11618400-11622400	Weak transcription	Psoas Muscle	Psoas

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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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