Variant report

Variant	rs557299977
Chromosome Location	chr10:97803177-97803178
allele	C/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	CTCF	chr10:97803080-97803230	GM12873	blood:	n/a	chr10:97803087-97803100 chr10:97803191-97803204
2	TCF12	chr10:97802541-97803653	A549	lung:	n/a	n/a
3	MYC	chr10:97803087-97803201	MCF-7	breast:	n/a	n/a
4	SMC3	chr10:97802970-97803401	Hela-S3	cervix:	n/a	chr10:97803086-97803100 chr10:97803191-97803201
5	CTCF	chr10:97803140-97803290	GM12872	blood:	n/a	chr10:97803191-97803204
6	NFIC	chr10:97802992-97804167	ECC-1	luminal epithelium:	n/a	n/a
7	MAX	chr10:97802658-97803782	HCT-116	colon:	n/a	chr10:97803523-97803532
8	NFYA	chr10:97802783-97803499	K562	blood:	n/a	n/a
9	POLR2A	chr10:97802810-97804161	HUVEC	blood vessel:	n/a	n/a
10	TAF1	chr10:97803102-97803550	K562	blood:	n/a	n/a
11	CTCF	chr10:97803034-97803283	MCF-7	breast:	n/a	chr10:97803087-97803100 chr10:97803191-97803204
12	POLR2A	chr10:97802840-97804445	GM12892	blood:	n/a	n/a
13	TAF1	chr10:97802917-97803889	HepG2	liver:	n/a	n/a
14	BRCA1	chr10:97802910-97803454	GM12878	blood:	n/a	chr10:97803258-97803267
15	YY1	chr10:97802793-97804352	HepG2	liver:	n/a	chr10:97803186-97803195 chr10:97803214-97803228 chr10:97803528-97803539 chr10:97803189-97803198
16	POLR2A	chr10:97802823-97804594	H1-neurons	neurons:	n/a	n/a
17	SIN3A	chr10:97802977-97803516	GM12878	blood:	n/a	chr10:97803197-97803206 chr10:97803097-97803108
18	CTCF	chr10:97803100-97803250	HRE	kidney:	n/a	chr10:97803191-97803204
19	TCF3	chr10:97802914-97803621	GM12878	blood:	n/a	n/a
20	NFYB	chr10:97802786-97803546	GM12878	blood:	n/a	n/a
21	NFATC1	chr10:97803034-97803534	GM12878	blood:	n/a	n/a
22	POLR2A	chr10:97802870-97803531	HCT-116	colon:	n/a	n/a
23	POLR2A	chr10:97802946-97804285	K562	blood:	n/a	n/a
24	YY1	chr10:97803091-97803602	H1-hESC	embryonic stem cell:	n/a	chr10:97803186-97803195 chr10:97803214-97803228 chr10:97803528-97803539 chr10:97803189-97803198
25	MYC	chr10:97802924-97803544	MCF10A-Er-Src	breast:	n/a	chr10:97803523-97803532
26	POLR2A	chr10:97802958-97803632	HUVEC	blood vessel:	n/a	n/a
27	USF1	chr10:97803146-97803405	SK-N-SH_RA	brain:	n/a	chr10:97803204-97803220 chr10:97803190-97803206
28	TAF7	chr10:97802883-97803581	H1-hESC	embryonic stem cell:	n/a	n/a
29	CTCF	chr10:97803035-97803239	MCF-7	breast:	n/a	chr10:97803087-97803100 chr10:97803191-97803204
30	MAX	chr10:97802689-97803680	MCF-7	breast:	n/a	chr10:97803523-97803532
31	JUND	chr10:97802928-97803422	K562	blood:	n/a	n/a
32	TBP	chr10:97802942-97803510	HepG2	liver:	n/a	n/a
33	RUNX3	chr10:97802832-97803562	GM12878	blood:	n/a	n/a
34	TAF1	chr10:97803114-97803513	K562	blood:	n/a	n/a
35	BCLAF1	chr10:97802801-97804116	GM12878	blood:	n/a	chr10:97803177-97803190 chr10:97803183-97803192 chr10:97803496-97803509 chr10:97803188-97803197 chr10:97803497-97803510 chr10:97803189-97803202
36	POLR2A	chr10:97802865-97803281	H1-hESC	embryonic stem cell:	n/a	n/a
37	MAZ	chr10:97802912-97804109	GM12878	blood:	n/a	chr10:97803523-97803532
38	MAX	chr10:97802734-97803839	Hela-S3	cervix:	n/a	chr10:97803523-97803532
39	YY1	chr10:97802862-97803670	ECC-1	luminal epithelium:	n/a	chr10:97803186-97803195 chr10:97803214-97803228 chr10:97803528-97803539 chr10:97803189-97803198
40	TBL1XR1	chr10:97803091-97803422	GM12878	blood:	n/a	n/a
41	POLR2A	chr10:97802963-97804295	HepG2	liver:	n/a	n/a
42	ELF1	chr10:97803128-97803552	K562	blood:	n/a	chr10:97803189-97803198 chr10:97803276-97803288
43	CTCF	chr10:97803040-97803190	MCF-7	breast:	n/a	chr10:97803087-97803100
44	CREB1	chr10:97802962-97804268	GM12878	blood:	n/a	n/a
45	POLR2A	chr10:97802912-97804197	GM12878	blood:	n/a	n/a
46	POLR2A	chr10:97802946-97804640	HUVEC	blood vessel:	n/a	n/a
47	POLR2A	chr10:97802839-97804295	HEK293	kidney:	n/a	n/a
48	RCOR1	chr10:97802820-97803464	Hela-S3	cervix:	n/a	n/a
49	KAP1	chr10:97802829-97803291	U2OS	brain:	n/a	n/a
50	TAF1	chr10:97802962-97803504	PFSK-1	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:97798897..97807548-chr10:97886918..97893342,17	K562	blood:
2	chr10:97665969..97667709-chr10:97802060..97805145,4	MCF-7	breast:
3	chr10:97798897..97809644-chr10:97883865..97893202,24	K562	blood:
4	chr10:97802278..97809202-chr10:97887978..97892462,12	MCF-7	breast:
5	chr1:16533188..16534138-chr10:97802646..97803367,2	Hela-S3	cervix:
6	chr10:97800624..97806520-chr10:97847575..97852414,10	K562	blood:
7	chr10:97802832..97806993-chr10:97887536..97891956,8	MCF-7	breast:
8	chr10:97802232..97804620-chr10:97847329..97851017,4	K562	blood:

Variant related genes	Relation type
CCNJ	TF binding region
ENTPD1-AS1	TF binding region
ENSG00000142632	Chromatin interaction
ENSG00000173088	Chromatin interaction
ENSG00000226688	Chromatin interaction
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 1 )
Associated
traits (count: 0)

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3372441	chr10:97802187-97804735	Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97802400-97803200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr10:97802400-97804200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr10:97802400-97804200	Active TSS	Brain Anterior Caudate	brain
4	chr10:97802400-97804400	Active TSS	Duodenum Smooth Muscle	Duodenum
5	chr10:97802600-97803200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
6	chr10:97802600-97803200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
7	chr10:97802600-97803200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr10:97802600-97803200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr10:97802600-97803200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
10	chr10:97802600-97803200	Flanking Active TSS	Adipose Nuclei	Adipose
11	chr10:97802600-97803200	Active TSS	Colonic Mucosa	Colon
12	chr10:97802600-97803200	Flanking Active TSS	Thymus	Thymus
13	chr10:97802600-97803200	Flanking Active TSS	HepG2	liver
14	chr10:97802600-97803400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr10:97802600-97804200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
16	chr10:97802600-97804200	Active TSS	Brain Substantia Nigra	brain
17	chr10:97802600-97804200	Active TSS	Fetal Heart	heart
18	chr10:97802600-97804400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr10:97802600-97804400	Active TSS	Brain Cingulate Gyrus	brain
20	chr10:97802600-97804400	Active TSS	Brain Inferior Temporal Lobe	brain
21	chr10:97802600-97804400	Active TSS	Fetal Kidney	kidney
22	chr10:97802600-97804600	Active TSS	Fetal Brain Female	brain
23	chr10:97802600-97804800	Active TSS	Fetal Brain Male	brain
24	chr10:97802600-97804800	Active TSS	A549	lung
25	chr10:97802600-97805000	Flanking Active TSS	Primary B cells from cord blood	blood
26	chr10:97802600-97805000	Active TSS	Right Atrium	heart
27	chr10:97802600-97805200	Active TSS	ES-I3 Cell Line	embryonic stem cell
28	chr10:97802600-97805200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr10:97802600-97805200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr10:97802600-97805800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr10:97802800-97803200	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr10:97802800-97803200	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr10:97802800-97803200	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr10:97802800-97803200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
35	chr10:97802800-97803200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
36	chr10:97802800-97803200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
37	chr10:97802800-97803200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
38	chr10:97802800-97803200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:97802800-97803200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:97802800-97803200	Flanking Active TSS	Right Ventricle	heart
41	chr10:97802800-97803200	Flanking Active TSS	HMEC	breast
42	chr10:97802800-97803200	Flanking Active TSS	HUVEC	blood vessel
43	chr10:97802800-97803200	Flanking Active TSS	K562	blood
44	chr10:97802800-97804200	Active TSS	Liver	Liver
45	chr10:97802800-97804200	Active TSS	Brain Hippocampus Middle	brain
46	chr10:97802800-97804400	Active TSS	Psoas Muscle	Psoas
47	chr10:97802800-97804600	Active TSS	HUES6 Cell Line	embryonic stem cell
48	chr10:97802800-97804600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr10:97802800-97804600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr10:97802800-97804600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links