Computational Discovery of Overlapping Transcriptional Units in the Human & Mouse Genomes

Candidate UniGene cluster:UniGene Cluster Hs.239527
Description:RAP2B, member of RAS oncogene family
Best-Of-UniGene (BOU) SequenceBC012362
Genomic Coordiantes Displayed:Bases 453799 to 457740 of contig Hs3_5814_24
BOU Orientation Along Contig:LEFT-TO-RIGHT with respect to contig
Link to JPEG of genomic mappingHs.239527.jpeg
Best sense EST/protein match:BC012362 matched ref|XP_003032.1| (XM_003032) similar to RIKEN cDNA 4021402C18 gene (M. musculus) (E = 3e-91)
Best antisense EST/protein match:No protein match with an e-value of less than 1e-10


This page provides information on exon-intron structure, mouse-human homologies, polyA signals & locations, and protein homologies of ESTs from directionally-cloned libraries that are members of a UniGene cluster that is a candidate for containing ESTs derived from distinct, overlapping sense & antisense transcripts.
The upper portion of the graph is reserved for the exon-intron mappings of ESTs oriented consistently with the Best-Of-UniGene (BOU) sequence (in gold). The lower portion of the graph is reserved for the exon-intron mappings of ESTs oriented opposite the BOU sequence (in white). Dividing these portions are the exon-intron mapping of the BOU sequence itself (in blue and green). Immedietely below the BOU are HUMMUS-defined streches of sequences highly conserved between mouse and human. The height of each bar is reflective of the % identity of human-mouse homology over a 100 base-pair window centered at a given base. At the left of the graph, the GenBank accession number of the BOU or EST sequence represented along that Y-axis position is listed, along with the UniLib identification number of the library from which that EST was derived.Below the graph, the GenBank accession numbers of each of the sense & antisense ESTs are provided, along with information on which have polyA signals and protein homologies, as determined by the NCBI.

Below are listed the same set of ESTs as is depicted above, with information of read direction, tissue type, protein similarity (P), and poly-adenylation signal (A).

ANTISENSE ESTs
  AI689088 cDNA clone IMAGE:2276007 uterus 3' read 2.1 kb
  AV738613 cDNA clone CBFBQC03 cord blood 5' read
  AI247577 cDNA clone IMAGE:1849089 pool 3' read 0.8 kb
  R44169 cDNA clone IMAGE:34239 brain 3' read 1.6 kb
  R60008 cDNA clone IMAGE:42710 brain 3' read 1.7 kb
  R23387 cDNA clone IMAGE:34239 brain 5' read 1.6 kb
  R67201 cDNA clone IMAGE:42710 brain 5' read 1.7 kb

SENSE ESTs

  BI551390 cDNA clone IMAGE:5263876 hippocampus, cell line 5' read Protein similarity
  BI551382 cDNA clone IMAGE:5263874 hippocampus, cell line 5' read Protein similarity
  BI911829 cDNA clone IMAGE:5214571 leukocyte 5' read Protein similarity
  BF965860 cDNA clone IMAGE:4364907 osteosarcoma, cell line 5' read
  BG913315 cDNA clone IMAGE:4944175 anaplastic oligodendroglioma with 1p/19q loss 5' read
  BG479032 cDNA clone IMAGE:4650072 choriocarcinoma 5' read Protein similarity
  BG758297 cDNA clone IMAGE:4852533 primary b-cells from tonsils (cell line) 5' read Protein similarity
  AA296588 cDNA clone ATCC:194181 uterus 5' read
  BF973442 cDNA clone IMAGE:4331000 leiomyosarcoma cell line 5' read
  BI868508 cDNA clone IMAGE:5402592 adenocarcinoma, cell line 5' read
  BG110880 cDNA clone IMAGE:4372083 osteosarcoma, cell line 5' read
  BG291540 cDNA clone IMAGE:4514666 transitional cell papilloma, cell line 5' read
  BG403307 cDNA clone IMAGE:4526488 transitional cell papilloma, cell line 5' read
  BG403738 cDNA clone IMAGE:4526537 transitional cell papilloma, cell line 5' read
  BI963900 cDNA clone (no-name) islets of langerhans 3' read
  AA564205 cDNA clone IMAGE:1016216 germ cell 3' read
  AI033379 cDNA clone IMAGE:1655231 pool 3' read
  AW674030 cDNA clone IMAGE:2900893 placenta 3' read
  AA807771 cDNA clone IMAGE:1255554 germ cell 3' read 0.8 kb
  AI243905 cDNA clone IMAGE:1850787 pool 3' read 0.6 kb
  AI934330 cDNA clone IMAGE:2454093 pancreas 3' read 1.5 kb
  BI856537 cDNA clone IMAGE:5394563 mammary adenocarcinoma, cell line 5' read