Variant report

Variant	rs11123861
Chromosome Location	chr2:98309882-98309883
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:98262433..98263983-chr2:98307567..98310262,2	MCF-7	breast:
2	chr2:98307215..98309904-chr2:98310640..98314213,3	K562	blood:

Variant related genes	Relation type
ENSG00000135940	Chromatin interaction
ENSG00000228486	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1020396	0.80[CHB][hapmap];0.81[LWK][hapmap]
rs10496323	1.00[ASW][hapmap];0.84[CEU][hapmap];0.80[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11547232	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11680855	1.00[ASW][hapmap];0.88[CEU][hapmap];0.80[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11690658	0.84[CEU][hapmap]
rs11691779	0.94[GIH][hapmap];0.84[TSI][hapmap]
rs12994535	0.84[CEU][hapmap]
rs12997695	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13000505	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13001728	0.85[CEU][hapmap]
rs13003963	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13034349	0.80[CHB][hapmap];0.81[CHD][hapmap];0.81[LWK][hapmap]
rs1463173	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463174	0.92[CEU][hapmap];0.80[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1800649	0.88[CEU][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];0.83[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1965204	0.83[CEU][hapmap]
rs35211079	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3931133	0.87[CEU][hapmap]
rs55772322	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56281704	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62157580	0.82[ASN][1000 genomes]
rs6718109	0.83[CEU][hapmap];0.97[GIH][hapmap];0.86[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757819	chr2:97571109-98336507	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
2	esv2759077	chr2:97571109-98336507	Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
3	esv1829350	chr2:98170405-98315611	Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv531382	chr2:98250628-98457616	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv874696	chr2:98309882-98362907	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS 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	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs11123861	ANKRD36B	cis	lung	GTEx
rs11123861	ANKRD36B	cis	Artery Tibial	GTEx
rs11123861	ANKRD36B	cis	Nerve Tibial	GTEx
rs11123861	ACTR1B	cis	cerebellum	SCAN
rs11123861	ANKRD36B	cis	Thyroid	GTEx
rs11123861	AC017099.3	cis	Muscle Skeletal	GTEx
rs11123861	ANKRD36B	cis	cerebellum	SCAN
rs11123861	FAHD2B	cis	cerebellum	SCAN
rs11123861	ZAP70	cis	lymphoblastoid	seeQTL
rs11123861	ANKRD36B	cis	Esophagus Mucosa	GTEx
rs11123861	ZAP70	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:98281000-98323800	Weak transcription	Gastric	stomach
2	chr2:98292200-98317800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:98305600-98313600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr2:98306000-98322400	Weak transcription	Fetal Stomach	stomach
5	chr2:98307000-98313400	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr2:98307800-98310800	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr2:98308200-98312400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:98308200-98313400	Weak transcription	Brain Substantia Nigra	brain
9	chr2:98308200-98316400	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr2:98308400-98317600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr2:98308600-98313400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr2:98308600-98313600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr2:98309400-98317800	Weak transcription	HSMM	muscle

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