Genomic Probe Mapping

Mapping of probe set 208069_x_at to genomic DNA

This probe set contains 11 probes

Affymetrix annotation for this probe set:

Representative Public ID	NM_022561
Chromosomal Location	chr17q24.2
UniGene ID	Hs.655225
Gene Symbol	CSH1, CSH2, CSHL1, GH1, GH2
Ensembl	ENSG00000136487, ENSG00000136488, ENSG00000189162, ENSG00000204414, ENSG00000213218
Entrez Gene	1442, 1443, 1444, 2688, 2689
SwissProt	A6NEF6, A6NFB4, A6NIT4, A6NKA8, A6NP12, A8K6C2, A8MTU3, B1A4G6, B1A4G7, B1A4H0, B1A4H2, B1A4H5, B1A4H7, B1A4H9, O14643, O14644, P01241, P01242, P01243, P78451, Q0VDB1, Q0VDB2, Q14406, Q6FH32, Q6FH54, Q6IYF0, Q6IYF1, Q6PF11, Q7KZ35
RefSeq Transcript ID	NM_000515, NM_001317, NM_001318, NM_002059, NM_020991, NM_022556, NM_022557, NM_022558, NM_022559, NM_022560, NM_022561, NM_022562, NM_022579, NM_022580, NM_022581, NM_022640, NM_022641, NM_022644, NM_022645

Annotation based on mapping results:

This probe is not unique and matches GH1, GH2, CSH1, CSH2, CSHL1.

Only 9/11 probes within this probe set were perfectly matched to the annotated transcript.

This gene has 22 alternative probes: (1) 202493_x_at, (2) 203807_x_at, (3) 205840_x_at, (4) 205958_x_at, (5) 206195_x_at, (6) 206475_x_at, (7) 206885_x_at, (8) 206886_x_at, (9) 207285_x_at, (10) 207770_x_at, (11) 208068_x_at, (12) 208069_x_at, (13) 208293_x_at, (14) 208294_x_at, (15) 208295_x_at, (16) 208341_x_at, (17) 208342_x_at, (18) 208356_x_at, (19) 208357_x_at, (20) 211151_x_at, (21) 211508_s_at, (22) 211739_x_at.

Affymetrix annotation for this probe: CSH2, CSHL1, GH1, GH2, CSH1.

Brainarray annotation for this probe: GH1.

Probes matching to Affy annotated chromosome using BLAT (2 mismatches allowed):

Mapping to chr17

Probe name

Start

End

Strand

Match

Gene match (UCSC ID, Symbol, Exons)

Notes

208069_x_at_1

59349496

59349521

25/25

uc002jdi.1	GH1	2
uc002jdl.1	GH1	2
uc002jdk.1	GH1	2
uc002jdn.2	GH1	2
uc002jdj.1	GH1	2

59312509

59312534

25/25

uc002jcl.1	GH2	2
uc002jcn.1	GH2	2
uc002jcm.1	GH2	2
uc002jcj.1	GH2	2
uc002jco.1	GH2	2

59327226

59327249

23/25

uc002jcq.1	CSH1	1
uc002jcy.1	CSH1	2
uc002jcp.1	CSH1	1
uc002jcu.1	CSH1	2
uc002jcs.1	CSH1	2
uc002jcv.1	CSH1	2
uc002jcr.1	CSH1	1
uc002jcw.1	CSH1	2

59341918

59341938

20/25

uc002jda.1	CSHL1	2
uc002jde.1	CSHL1	1
uc002jdg.1	CSHL1	2
uc002jcz.1	CSHL1	2

This probe is not considered a match. Only 20/25 matches found

208069_x_at_2

59349482

59349507

25/25

uc002jdi.1	GH1	2
uc002jdl.1	GH1	2
uc002jdk.1	GH1	2
uc002jdn.2	GH1	2
uc002jdj.1	GH1	2

59312495

59312520

25/25

uc002jcl.1	GH2	2
uc002jcn.1	GH2	2
uc002jcm.1	GH2	2
uc002jcj.1	GH2	2
uc002jco.1	GH2	2

208069_x_at_3

59349439

59349464

25/25

uc002jdi.1	GH1	2
uc002jdl.1	GH1	2
uc002jdk.1	GH1	2
uc002jdn.2	GH1	2
uc002jdj.1	GH1	2

59341857

59342065

25/25

uc002jda.1	CSHL1	2
uc002jdd.1	CSHL1	2
uc002jde.1	CSHL1	1
uc002jdg.1	CSHL1	2
uc002jcz.1	CSHL1	2

This probe is not considered a match. Chr gap bases = 183

59327168

59327377

25/25

uc002jcq.1	CSH1	1
uc002jct.1	CSH1	2
uc002jcy.1	CSH1	2
uc002jcp.1	CSH1	1
uc002jcu.1	CSH1	2
uc002jcs.1	CSH1	2
uc002jcv.1	CSH1	2
uc002jcr.1	CSH1	1
uc002jcw.1	CSH1	2

This probe is not considered a match. Chr gap bases = 184

59304272

59304481

25/25

uc002jci.1	CSH2	2
uc002jck.1	CSH2	2
uc002jch.1	CSH2	2
uc002jcg.1	CSH2	2

This probe is not considered a match. Chr gap bases = 184

208069_x_at_4

59348546

59348571

25/25

uc002jdi.1	GH1	5
uc002jdm.1	GH1	2
uc002jdn.2	GH1	5
uc002jdk.1	GH1	4
uc002jdj.1	GH1	5
uc002jdl.1	GH1	3

59326259

59326284

24/25

uc002jcq.1	CSH1	4
uc002jct.1	CSH1	5
uc002jcy.1	CSH1	3
uc002jcp.1	CSH1	4
uc002jcu.1	CSH1	4
uc002jcs.1	CSH1	5
uc002jcv.1	CSH1	3
uc002jcr.1	CSH1	2
uc002jcw.1	CSH1	5

59303363

59303388

24/25

uc002jci.1	CSH2	4
uc002jck.1	CSH2	5
uc002jch.1	CSH2	5
uc002jcj.1	GH2	5
uc002jcg.1	CSH2	3

59340948

59340973

23/25

uc002jdf.1	CSHL1	3
uc002jdh.1	CSHL1	3
uc002jcz.1	CSHL1	5
uc002jdc.1	CSHL1	4
uc002jdg.1	CSHL1	3
uc002jdb.1	CSHL1	4
uc002jdd.1	CSHL1	5
uc002jda.1	CSHL1	5
uc002jde.1	CSHL1	2

208069_x_at_5

59348532

59348557

25/25

uc002jdi.1	GH1	5
uc002jdm.1	GH1	2
uc002jdn.2	GH1	5
uc002jdk.1	GH1	4
uc002jdj.1	GH1	5
uc002jdl.1	GH1	3

59340934

59340959

24/25

uc002jdf.1	CSHL1	3
uc002jdh.1	CSHL1	3
uc002jcz.1	CSHL1	5
uc002jdc.1	CSHL1	4
uc002jdg.1	CSHL1	3
uc002jdb.1	CSHL1	4
uc002jdd.1	CSHL1	5
uc002jda.1	CSHL1	5
uc002jde.1	CSHL1	2

59326245

59326270

24/25

uc002jcq.1	CSH1	4
uc002jct.1	CSH1	5
uc002jcy.1	CSH1	3
uc002jcp.1	CSH1	4
uc002jcu.1	CSH1	4
uc002jcs.1	CSH1	5
uc002jcv.1	CSH1	3
uc002jcr.1	CSH1	2
uc002jcw.1	CSH1	5

59303349

59303374

24/25

uc002jci.1	CSH2	4
uc002jck.1	CSH2	5
uc002jch.1	CSH2	5
uc002jcj.1	GH2	5
uc002jcg.1	CSH2	3

208069_x_at_6

59348492

59348517

25/25

uc002jdi.1	GH1	5
uc002jdm.1	GH1	2
uc002jdn.2	GH1	5
uc002jdk.1	GH1	4
uc002jdj.1	GH1	5
uc002jdl.1	GH1	3

59340894

59340919

24/25

uc002jdf.1	CSHL1	3
uc002jdh.1	CSHL1	3
uc002jcz.1	CSHL1	5
uc002jdc.1	CSHL1	4
uc002jdg.1	CSHL1	3
uc002jdb.1	CSHL1	4
uc002jdd.1	CSHL1	5
uc002jda.1	CSHL1	5
uc002jde.1	CSHL1	2

59326205

59326230

24/25

uc002jcq.1	CSH1	4
uc002jct.1	CSH1	5
uc002jcy.1	CSH1	3
uc002jcp.1	CSH1	4
uc002jcu.1	CSH1	4
uc002jcs.1	CSH1	5
uc002jcv.1	CSH1	3
uc002jcr.1	CSH1	2
uc002jcw.1	CSH1	5

59311504

59311529

24/25

uc002jcl.1	GH2	4
uc002jcn.1	GH2	5
uc002jcm.1	GH2	5
uc002jco.1	GH2	5

59303309

59303334

24/25

uc002jci.1	CSH2	4
uc002jck.1	CSH2	5
uc002jch.1	CSH2	5
uc002jcj.1	GH2	5
uc002jcg.1	CSH2	3

208069_x_at_7

59348469

59348494

25/25

uc002jdi.1	GH1	5
uc002jdm.1	GH1	2
uc002jdn.2	GH1	5
uc002jdk.1	GH1	4
uc002jdj.1	GH1	5
uc002jdl.1	GH1	3

59326182

59326207

25/25

uc002jcq.1	CSH1	4
uc002jct.1	CSH1	5
uc002jcy.1	CSH1	3
uc002jcp.1	CSH1	4
uc002jcu.1	CSH1	4
uc002jcs.1	CSH1	5
uc002jcv.1	CSH1	3
uc002jcr.1	CSH1	2
uc002jcw.1	CSH1	5

59311481

59311506

25/25

uc002jcl.1	GH2	4
uc002jcn.1	GH2	5
uc002jcm.1	GH2	5
uc002jco.1	GH2	5

59303286

59303311

25/25

uc002jci.1	CSH2	4
uc002jck.1	CSH2	5
uc002jch.1	CSH2	5
uc002jcj.1	GH2	5
uc002jcg.1	CSH2	3

59340871

59340896

24/25

uc002jdf.1	CSHL1	3
uc002jdh.1	CSHL1	3
uc002jcz.1	CSHL1	5
uc002jdc.1	CSHL1	4
uc002jdg.1	CSHL1	3
uc002jdb.1	CSHL1	4
uc002jdd.1	CSHL1	5
uc002jda.1	CSHL1	5
uc002jde.1	CSHL1	2

208069_x_at_8

59349884

59349908

24/25

uc002jdi.1	GH1	1
uc002jdm.1	GH1	1
uc002jdn.2	GH1	1
uc002jdk.1	GH1	1
uc002jdj.1	GH1	1
uc002jdl.1	GH1	1

59327619

59327643

24/25

uc002jct.1	CSH1	1
uc002jcy.1	CSH1	1
uc002jck.1	CSH2	1
uc002jcu.1	CSH1	1
uc002jcs.1	CSH1	1
uc002jcv.1	CSH1	1
uc002jcr.1	CSH1	1
uc002jcw.1	CSH1	1

59312909

59312933

24/25

uc002jcl.1	GH2	1
uc002jcn.1	GH2	1
uc002jcm.1	GH2	1
uc002jcj.1	GH2	1
uc002jco.1	GH2	1

59304722

59304746

24/25

uc002jci.1	CSH2	1
uc002jch.1	CSH2	1
uc002jcg.1	CSH2	1

59342304

59342328

23/25

uc002jdf.1	CSHL1	1
uc002jdh.1	CSHL1	1
uc002jcz.1	CSHL1	1
uc002jdc.1	CSHL1	1
uc002jdg.1	CSHL1	1
uc002jdb.1	CSHL1	1
uc002jdd.1	CSHL1	1
uc002jda.1	CSHL1	1
uc002jde.1	CSHL1	1

208069_x_at_9

59348441

59348466

25/25

uc002jdi.1	GH1	5
uc002jdm.1	GH1	2
uc002jdn.2	GH1	5
uc002jdk.1	GH1	4
uc002jdj.1	GH1	5
uc002jdl.1	GH1	3

59340843

59340868

25/25

uc002jdf.1	CSHL1	3
uc002jdh.1	CSHL1	3
uc002jcz.1	CSHL1	5
uc002jdc.1	CSHL1	4
uc002jdg.1	CSHL1	3
uc002jdb.1	CSHL1	4
uc002jdd.1	CSHL1	5
uc002jda.1	CSHL1	5
uc002jde.1	CSHL1	2

59326154

59326179

25/25

uc002jcq.1	CSH1	4
uc002jct.1	CSH1	5
uc002jcy.1	CSH1	3
uc002jcp.1	CSH1	4
uc002jcu.1	CSH1	4
uc002jcs.1	CSH1	5
uc002jcv.1	CSH1	3
uc002jcr.1	CSH1	2
uc002jcw.1	CSH1	5

59311453

59311478

25/25

uc002jcl.1	GH2	4
uc002jcn.1	GH2	5
uc002jcm.1	GH2	5
uc002jco.1	GH2	5

59303258

59303283

25/25

uc002jci.1	CSH2	4
uc002jck.1	CSH2	5
uc002jch.1	CSH2	5
uc002jcj.1	GH2	5
uc002jcg.1	CSH2	3

208069_x_at_10

59348330

59348355

24/25

uc002jdi.1	GH1	5
uc002jdm.1	GH1	2
uc002jdn.2	GH1	5
uc002jdk.1	GH1	4
uc002jdj.1	GH1	5
uc002jdl.1	GH1	3

59303144

59303169

23/25

uc002jci.1	CSH2	4
uc002jck.1	CSH2	5
uc002jch.1	CSH2	5
uc002jcj.1	GH2	5
uc002jcg.1	CSH2	3

208069_x_at_11

59349859

59349883

24/25

uc002jdi.1	GH1	1
uc002jdm.1	GH1	1
uc002jdn.2	GH1	1
uc002jdk.1	GH1	1
uc002jdj.1	GH1	1
uc002jdl.1	GH1	1