Variant report

Variant	rs56226734
Chromosome Location	chr4:99417717-99417718
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RAP1GDS1-1	chr4:99417676-99417848	ENSG00000251523.1

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11723468	1.00[ASN][1000 genomes]
rs4699636	0.89[AMR][1000 genomes]
rs7674194	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529623	chr4:98501338-99460166	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	esv2754250	chr4:99094922-99527122	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv879651	chr4:99105055-99441349	Weak transcription Genic enhancers Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats 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	17 gene(s)	inside rSNPs	diseases
4	nsv1004181	chr4:99208152-99529576	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99389400-99419800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr4:99396200-99431400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr4:99397600-99439400	Weak transcription	Primary B cells from cord blood	blood
4	chr4:99400000-99429800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr4:99400400-99419200	Weak transcription	Fetal Thymus	thymus
6	chr4:99402600-99422800	Weak transcription	Aorta	Aorta
7	chr4:99402600-99423600	Weak transcription	Primary T cells from cord blood	blood
8	chr4:99402600-99426800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:99404800-99419200	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr4:99404800-99419800	Weak transcription	Spleen	Spleen
11	chr4:99405600-99431000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr4:99406800-99418600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr4:99408000-99432200	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr4:99409800-99431600	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr4:99411000-99418200	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr4:99413800-99418400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:99413800-99418800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr4:99413800-99419600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr4:99413800-99419600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:99413800-99419600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr4:99413800-99420000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr4:99413800-99421600	Weak transcription	NHEK	skin
23	chr4:99413800-99423000	Weak transcription	NHDF-Ad	bronchial
24	chr4:99413800-99427200	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr4:99413800-99430200	Weak transcription	HMEC	breast
26	chr4:99414000-99418800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr4:99415000-99422200	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr4:99415200-99418000	Enhancers	Brain Substantia Nigra	brain
29	chr4:99415200-99418000	Enhancers	Ovary	ovary
30	chr4:99415400-99417800	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr4:99415800-99418200	Enhancers	Fetal Stomach	stomach
32	chr4:99416000-99417800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr4:99416000-99417800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
34	chr4:99416000-99417800	Enhancers	Colon Smooth Muscle	Colon
35	chr4:99416000-99417800	Enhancers	Fetal Lung	lung
36	chr4:99416000-99418000	Enhancers	Brain Anterior Caudate	brain
37	chr4:99416000-99423000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr4:99416200-99418000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr4:99416200-99431600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr4:99416400-99418800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr4:99416600-99417800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr4:99416600-99417800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr4:99416600-99417800	Enhancers	Fetal Brain Male	brain
44	chr4:99416600-99430800	Weak transcription	Thymus	Thymus
45	chr4:99416800-99429600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr4:99417000-99418000	Enhancers	Fetal Heart	heart
47	chr4:99417000-99418600	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr4:99417000-99419000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr4:99417000-99419800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr4:99417000-99420000	Weak transcription	Brain Angular Gyrus	brain

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