Variant report

Variant	rs7708757
Chromosome Location	chr5:177777888-177777889
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HNRNPAB-3	chr5:177777868-177778200	ENSG00000253698.1

Extended variants
information (count: 25 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs17580218	0.85[JPT][hapmap];0.82[AMR][1000 genomes]
rs17641413	0.85[JPT][hapmap];0.82[AMR][1000 genomes]
rs2913801	0.81[AMR][1000 genomes]
rs2913803	0.81[AMR][1000 genomes]
rs2913805	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2913806	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2913807	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34688771	0.83[AMR][1000 genomes]
rs6601233	0.81[EUR][1000 genomes]
rs6862908	0.80[EUR][1000 genomes]
rs6877633	1.00[JPT][hapmap]
rs748083	0.85[JPT][hapmap];0.85[YRI][hapmap];0.83[AMR][1000 genomes]
rs751181	0.84[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948342	chr5:177384542-178168737	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	141 gene(s)	inside rSNPs	diseases
2	nsv1029398	chr5:177502106-178070654	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	136 gene(s)	inside rSNPs	diseases
3	nsv1019404	chr5:177507080-177859089	Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	126 gene(s)	inside rSNPs	diseases
4	nsv1021981	chr5:177620372-177825272	Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	105 gene(s)	inside rSNPs	diseases
5	nsv537967	chr5:177620372-177825272	Active TSS Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	105 gene(s)	inside rSNPs	diseases
6	nsv1024689	chr5:177638936-177926244	Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv537968	chr5:177638936-177926244	Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
8	nsv883205	chr5:177684682-177777888	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv883206	chr5:177684682-177796121	Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv1027165	chr5:177693601-177843314	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv427739	chr5:177766033-177966666	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv883210	chr5:177771925-177980792	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7708757	HRH2	cis	parietal	SCAN
rs7708757	GNB2L1	cis	parietal	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:177759400-177783400	Weak transcription	Right Atrium	heart
2	chr5:177768200-177783000	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr5:177769600-177783200	Weak transcription	Fetal Thymus	thymus
4	chr5:177775000-177779200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
5	chr5:177775400-177778600	Bivalent Enhancer	Fetal Stomach	stomach
6	chr5:177775400-177779200	Strong transcription	Thymus	Thymus
7	chr5:177776000-177778200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr5:177776000-177778200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr5:177776000-177779600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr5:177776000-177780400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr5:177776000-177783000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:177776000-177783000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr5:177776200-177778200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr5:177776200-177778400	Enhancers	NHDF-Ad	bronchial
15	chr5:177776200-177780600	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:177776200-177783200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr5:177776200-177783400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr5:177776400-177778600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr5:177776600-177778600	Enhancers	Spleen	Spleen
20	chr5:177776800-177778200	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr5:177776800-177778400	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr5:177777000-177778800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr5:177777000-177778800	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr5:177777200-177778000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr5:177777200-177778000	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr5:177777200-177778200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
27	chr5:177777200-177779200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr5:177777400-177778000	Enhancers	Placenta	Placenta
29	chr5:177777400-177778200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr5:177777400-177778200	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr5:177777400-177780200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:177777800-177778600	Enhancers	H1 Cell Line	embryonic stem cell
33	chr5:177777800-177783000	Weak transcription	Primary neutrophils fromperipheralblood	blood

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