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

Candidate UniGene cluster:UniGene Cluster Mm.31946
Description:RIKEN cDNA 1810063B05 gene
Best-Of-UniGene (BOU) SequenceAK007939
Genomic Coordiantes Displayed:Bases 2810473 to 2817562 of contig GA_x5J8B7W5S4C
BOU Orientation Along Contig:LEFT-TO-RIGHT with respect to contig
Link to JPEG of genomic mappingMm.31946.jpeg
Best sense EST/protein match:BG061243 matched ref|XP_002084.3| (XM_002084) similar to TAR (HIV) RNA-binding protein 1 (H. sapiens) (E = 1e-36)
Best antisense EST/protein match:BI110511 matched ref|XP_059114.1| (XM_059114) similar to alternatively spliced form (H. sapiens) (E = 5e-35)

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).

  AI891594 cDNA clone IMAGE:2123130 kidney 3' read
  BI731417 cDNA clone IMAGE:5361090 retina 5' read
  AW413409 cDNA clone IMAGE:2631341 infiltrating ductal carcinoma 3' read Polyadenylation signal
  AW541918 cDNA clone C0151C08 3' read Polyadenylation signal
  AI788989 cDNA clone IMAGE:1973032 kidney 3' read
  BI695236 cDNA clone IMAGE:5374100 tumor, biopsy sample 5' read
  BG975168 cDNA clone IMAGE:4978887 tumor, gross tissue 5' read
  BF135025 cDNA clone IMAGE:4007872 tumor, metastatic to mammary 5' read
  AI647886 cDNA clone IMAGE:1971945 kidney 3' read
  AI649277 cDNA clone IMAGE:1970481 kidney 3' read
  W87118 cDNA clone IMAGE:418532 embryo 5' read
  AI020883 cDNA clone IMAGE:1366151 mammary gland 5' read
  AA237638 cDNA clone IMAGE:681525 liver 5' read
  AI020852 cDNA clone IMAGE:1366126 mammary gland 5' read
  W65925 cDNA clone IMAGE:387159 embryo 5' read
  BI110511 cDNA clone IMAGE:5026081 tumor, gross tissue 5' read
  AA238377 cDNA clone IMAGE:692465 liver 5' read
  AA213008 cDNA clone IMAGE:677582 liver 5' read
  W53305 cDNA clone IMAGE:370931 embryo 5' read
  W65691 cDNA clone IMAGE:387136 embryo 5' read
  AA154363 cDNA clone IMAGE:605144 embryonal carcinoma 5' read
  AA270191 cDNA clone IMAGE:748643 liver 5' read
  AI875272 cDNA clone IMAGE:1970481 kidney 5' read
  AA243937 cDNA clone IMAGE:694142 liver 5' read
  AI891959 cDNA clone IMAGE:2123130 kidney 5' read
  AA451216 cDNA clone IMAGE:850351 mammary gland 5' read
  AA154409 cDNA clone IMAGE:616184 embryonal carcinoma 5' read
  AA794878 cDNA clone IMAGE:1196207 mammary gland 5' read
  AI788318 cDNA clone IMAGE:1973032 kidney 5' read
  BB564505 cDNA clone 2010014J04 small intestine 5' read


  BG061243 cDNA clone L0904B11 5' read Protein similarity
  AA285826 cDNA clone IMAGE:764144 spleen 5' read
  BG078843 cDNA clone H3032G01 5' read
  AI592042 cDNA clone IMAGE:597725 spleen 5' read
  AA153035 cDNA clone IMAGE:597725 spleen 5' read
  BF151921 cDNA clone IMAGE:3669776 tumor, gross tissue 5' read
  BG863330 cDNA clone IMAGE:4934461 tumor, gross tissue 5' read
  BG065566 cDNA clone H3032G01 3' read Polyadenylation signal
  C76013 cDNA clone J0002A05 embryo 3' read
  BG060526 cDNA clone L0904B11 3' read Polyadenylation signal
  AA958559 cDNA clone IMAGE:1346725 mammary gland 5' read
  BF536015 cDNA clone IMAGE:4193315 salivary gland 5' read
  AI467031 cDNA clone IMAGE:764144 spleen 3' read Polyadenylation signal
  BI154244 cDNA clone IMAGE:5032743 tumor, gross tissue 5' read
  BI454580 cDNA clone IMAGE:5252198 tumor, gross tissue 5' read