Variant report

Variant	rs35578021
Chromosome Location	chr11:9009945-9009946
allele	A/C
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	GATA2	chr11:9009860-9010501	K562	blood:	n/a	chr11:9010331-9010341 chr11:9010333-9010350 chr11:9010332-9010339 chr11:9010332-9010341 chr11:9010384-9010393 chr11:9010325-9010346 chr11:9010332-9010339 chr11:9010332-9010339
2	GABPA	chr11:9009871-9010522	K562	blood:	n/a	n/a
3	POLR2A	chr11:9009834-9010605	K562	blood:	n/a	n/a
4	HMGN3	chr11:9009856-9010491	K562	blood:	n/a	chr11:9010387-9010396
5	MYC	chr11:9009854-9010526	K562	blood:	n/a	n/a
6	GATA2	chr11:9009787-9010646	K562	blood:	n/a	chr11:9010331-9010341 chr11:9010333-9010350 chr11:9010533-9010546 chr11:9010332-9010339 chr11:9010332-9010341 chr11:9010384-9010393 chr11:9010325-9010346 chr11:9009840-9009851 chr11:9010332-9010339 chr11:9010535-9010543 chr11:9010332-9010339
7	SMARCB1	chr11:9009830-9010745	K562	blood:	n/a	chr11:9010386-9010395
8	RCOR1	chr11:9009812-9010638	K562	blood:	n/a	n/a
9	IRF1	chr11:9009884-9010619	K562	blood:	n/a	n/a
10	GATA2	chr11:9009859-9010566	K562	blood:	n/a	chr11:9010331-9010341 chr11:9010333-9010350 chr11:9010533-9010546 chr11:9010332-9010339 chr11:9010332-9010341 chr11:9010384-9010393 chr11:9010325-9010346 chr11:9010332-9010339 chr11:9010535-9010543 chr11:9010332-9010339
11	STAT5A	chr11:9009786-9010635	K562	blood:	n/a	n/a
12	EP300	chr11:9009861-9010612	K562	blood:	n/a	n/a
13	TEAD4	chr11:9009771-9011748	K562	blood:	n/a	n/a
14	PML	chr11:9009843-9010607	K562	blood:	n/a	n/a
15	PML	chr11:9009771-9010635	K562	blood:	n/a	n/a
16	CEBPB	chr11:9009845-9010496	K562	blood:	n/a	n/a
17	HDAC2	chr11:9009829-9010595	K562	blood:	n/a	chr11:9010141-9010155
18	CCNT2	chr11:9009733-9010551	K562	blood:	n/a	chr11:9010330-9010350
19	TEAD4	chr11:9009765-9010691	K562	blood:	n/a	n/a
20	NFYA	chr11:9009913-9010461	K562	blood:	n/a	n/a
21	POLR2A	chr11:9009750-9010654	K562	blood:	n/a	n/a
22	NR2F2	chr11:9009827-9010569	K562	blood:	n/a	n/a
23	TRIM28	chr11:9009773-9010679	K562	blood:	n/a	n/a
24	STAT5A	chr11:9009803-9010599	K562	blood:	n/a	n/a
25	CBX3	chr11:9009915-9010632	K562	blood:	n/a	n/a
26	POLR2A	chr11:9009863-9010539	K562	blood:	n/a	n/a
27	MAFF	chr11:9009908-9010598	K562	blood:	n/a	n/a
28	REST	chr11:9009878-9010144	K562	blood:	n/a	n/a
29	EP300	chr11:9009931-9010512	K562	blood:	n/a	n/a
30	JUN	chr11:9009512-9011924	K562	blood:	n/a	chr11:9010385-9010395 chr11:9011084-9011092 chr11:9010385-9010395 chr11:9010385-9010395 chr11:9010386-9010394 chr11:9011083-9011093 chr11:9010385-9010395 chr11:9011200-9011209 chr11:9011085-9011096 chr11:9011084-9011091
31	UBTF	chr11:9009886-9010746	K562	blood:	n/a	n/a
32	NR2F2	chr11:9009737-9010726	K562	blood:	n/a	n/a
33	CEBPD	chr11:9009805-9010653	K562	blood:	n/a	n/a
34	ZMIZ1	chr11:9009880-9010537	K562	blood:	n/a	n/a
35	JUND	chr11:9009881-9010637	K562	blood:	n/a	chr11:9010385-9010395 chr11:9010385-9010395 chr11:9010385-9010395 chr11:9010386-9010394 chr11:9010385-9010395
36	ATF1	chr11:9009912-9010556	K562	blood:	n/a	n/a
37	POLR2A	chr11:9009857-9010575	K562	blood:	n/a	n/a
38	CEBPD	chr11:9009801-9010656	K562	blood:	n/a	n/a
39	GATA1	chr11:9009690-9010922	PBDE	blood:	n/a	chr11:9010331-9010341 chr11:9010333-9010350 chr11:9010533-9010546 chr11:9010332-9010339 chr11:9010332-9010341 chr11:9010384-9010393 chr11:9010325-9010346 chr11:9009840-9009851 chr11:9010332-9010339 chr11:9010535-9010543 chr11:9010332-9010339
40	TAL1	chr11:9009672-9010658	K562	blood:	n/a	chr11:9010332-9010350 chr11:9010331-9010339
41	ARID3A	chr11:9009838-9010684	K562	blood:	n/a	chr11:9010619-9010635
42	RCOR1	chr11:9009882-9010597	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:8985934..8987677-chr11:9008454..9010200,2	K562	blood:
2	chr11:8992487..8994704-chr11:9009691..9012434,3	K562	blood:
3	chr11:8985135..8987434-chr11:9007571..9009954,2	K562	blood:
4	chr11:8981281..8983336-chr11:9009757..9012558,2	K562	blood:
5	chr11:9008310..9013368-chr11:9022083..9026889,11	K562	blood:

Variant related genes	Relation type
NRIP3	TF binding region
ENSG00000254860	Chromatin interaction
ENSG00000175352	Chromatin interaction
ENSG00000253973	Chromatin interaction
ENSG00000175348	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1136966	1.00[ASN][1000 genomes]
rs12796375	1.00[ASN][1000 genomes]
rs1960181	1.00[ASN][1000 genomes]
rs1969627	1.00[ASN][1000 genomes]
rs1984775	1.00[ASN][1000 genomes]
rs2060157	1.00[ASN][1000 genomes]
rs2653609	1.00[ASN][1000 genomes]
rs2742483	1.00[ASN][1000 genomes]
rs34004082	1.00[ASN][1000 genomes]
rs34191466	1.00[ASN][1000 genomes]
rs4061640	1.00[ASN][1000 genomes]
rs56277831	1.00[ASN][1000 genomes]
rs7130454	1.00[ASN][1000 genomes]
rs71476814	1.00[ASN][1000 genomes]
rs72856032	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7396115	1.00[ASN][1000 genomes]
rs7936201	1.00[ASN][1000 genomes]
rs7941341	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	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv896984	chr11:8988550-9090408	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv33264	chr11:9007612-9311131	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35578021	C11orf17	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8987000-9010200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:8987000-9011000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr11:8987600-9010000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr11:8987600-9010000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr11:8987800-9010200	Weak transcription	NHDF-Ad	bronchial
6	chr11:8987800-9012000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr11:8989600-9010000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr11:8989600-9011200	Weak transcription	Brain Anterior Caudate	brain
9	chr11:8989600-9019600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr11:8991800-9015600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr11:9001800-9015200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr11:9005600-9010200	Weak transcription	HUVEC	blood vessel
13	chr11:9005600-9010400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr11:9008800-9010200	Weak transcription	Aorta	Aorta
15	chr11:9009600-9010800	Flanking Active TSS	K562	blood
16	chr11:9009600-9011600	Enhancers	Placenta Amnion	Placenta Amnion
17	chr11:9009800-9011800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links