Variant report

Variant	rs11888101
Chromosome Location	chr2:97568453-97568454
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr2:97568070-97568669	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAX	chr2:97568104-97568564	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:97558209..97561709-chr2:97566802..97569625,3	K562	blood:
2	chr2:97554940..97556485-chr2:97567959..97570783,2	K562	blood:
3	chr2:97568240..97570833-chr2:97573049..97574563,2	K562	blood:
4	chr2:97568349..97571105-chr2:97578253..97580296,2	K562	blood:

Variant related genes	Relation type
FAM178B	TF binding region
ENSG00000168754	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10191663	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13407036	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17119655	0.86[EUR][1000 genomes]
rs17119656	0.87[EUR][1000 genomes]
rs2314651	0.92[EUR][1000 genomes]
rs28612110	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4260285	0.98[EUR][1000 genomes]
rs58984980	0.97[EUR][1000 genomes]
rs59131346	0.98[EUR][1000 genomes]
rs59660613	0.86[EUR][1000 genomes]
rs62152901	0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62152903	0.97[EUR][1000 genomes]
rs62152904	0.95[EUR][1000 genomes]
rs62152905	0.94[EUR][1000 genomes]
rs62152906	0.94[EUR][1000 genomes]
rs62152907	0.95[EUR][1000 genomes]
rs62152908	0.86[EUR][1000 genomes]
rs62152910	0.86[EUR][1000 genomes]
rs6576990	0.96[EUR][1000 genomes]
rs6717064	0.87[EUR][1000 genomes]
rs6718420	0.95[EUR][1000 genomes]
rs6721921	0.98[EUR][1000 genomes]
rs6734673	0.86[EUR][1000 genomes]
rs6751815	0.95[EUR][1000 genomes]
rs72811651	0.94[EUR][1000 genomes]
rs7572852	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7589232	0.98[EUR][1000 genomes]
rs7591775	0.87[EUR][1000 genomes]
rs7592101	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7603256	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv874680	chr2:97309574-97678319	Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
8	nsv526313	chr2:97333492-97660619	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	nsv874681	chr2:97410949-97577343	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11888101	FAM178B	cis	Artery Tibial	GTEx

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97558200-97572200	Weak transcription	Right Atrium	heart
2	chr2:97561600-97572200	Weak transcription	Psoas Muscle	Psoas
3	chr2:97561800-97572000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr2:97562000-97572200	Weak transcription	Gastric	stomach
5	chr2:97562200-97569200	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:97562400-97569200	Weak transcription	Brain Substantia Nigra	brain
7	chr2:97562400-97569200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr2:97562400-97572000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr2:97562400-97572000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr2:97562600-97569200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr2:97562600-97569200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr2:97562600-97569200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr2:97562600-97569600	Weak transcription	Fetal Brain Female	brain
14	chr2:97563400-97569200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr2:97563400-97575200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr2:97563800-97572200	Weak transcription	Brain Angular Gyrus	brain
17	chr2:97563800-97573200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr2:97564200-97572200	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr2:97564800-97569000	Weak transcription	K562	blood
20	chr2:97565000-97569000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr2:97565000-97572000	Weak transcription	Right Ventricle	heart
22	chr2:97565000-97572000	Weak transcription	HSMMtube	muscle
23	chr2:97565000-97575000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr2:97565200-97569200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr2:97565200-97569400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr2:97565200-97569400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr2:97565200-97570000	Weak transcription	Primary T cells from cord blood	blood
28	chr2:97565200-97572000	Weak transcription	Fetal Lung	lung
29	chr2:97565200-97572200	Weak transcription	Ovary	ovary
30	chr2:97565400-97569200	Weak transcription	Stomach Smooth Muscle	stomach
31	chr2:97565400-97569400	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr2:97565400-97572200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr2:97565800-97569400	Weak transcription	HSMM	muscle
34	chr2:97566000-97569400	Weak transcription	Fetal Thymus	thymus
35	chr2:97566200-97569200	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr2:97566600-97572200	Weak transcription	Esophagus	oesophagus
37	chr2:97566800-97569600	Weak transcription	Spleen	Spleen
38	chr2:97568200-97569600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr2:97568200-97570600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr2:97568400-97568600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr2:97568400-97568600	Enhancers	Placenta Amnion	Placenta Amnion
42	chr2:97568400-97570000	Enhancers	Placenta	Placenta
43	chr2:97568400-97571200	Enhancers	Colon Smooth Muscle	Colon

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