Variant report

Variant	rs7802290
Chromosome Location	chr7:78116293-78116294
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PHTF2-5	chr7:78115847-78116345	NONHSAT121690

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs17147836	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17150878	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17150898	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17369423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55777644	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56040565	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56139883	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73150359	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73150374	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7780361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022764	chr7:77911072-78316607	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1022199	chr7:78054639-78469370	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv538986	chr7:78054639-78469370	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78103000-78117600	Weak transcription	Fetal Brain Female	brain
2	chr7:78104400-78116800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr7:78106600-78117000	Weak transcription	Brain Germinal Matrix	brain
4	chr7:78108400-78116800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr7:78108800-78117400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr7:78108800-78118800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr7:78109000-78118200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr7:78109600-78117600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr7:78109600-78118600	Weak transcription	Fetal Heart	heart
10	chr7:78113600-78118600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr7:78114600-78116400	Weak transcription	Brain Hippocampus Middle	brain
12	chr7:78114800-78116600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr7:78114800-78116800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr7:78114800-78118400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr7:78114800-78127800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr7:78115000-78119000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr7:78115200-78118600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr7:78115400-78118600	Weak transcription	Fetal Brain Male	brain
19	chr7:78115800-78116600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr7:78115800-78116800	Enhancers	Brain Anterior Caudate	brain
21	chr7:78116000-78117000	Enhancers	Brain Substantia Nigra	brain
22	chr7:78116200-78117000	Enhancers	Fetal Intestine Small	intestine
23	chr7:78116200-78118800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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