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

Candidate UniGene cluster:UniGene Cluster Mm.2560
Description:Rap2 interacting protein
Best-Of-UniGene (BOU) SequenceNM_016759
Genomic Coordiantes Displayed:Bases 6604081 to 6619012 of contig GA_x5J8B7W82RK
BOU Orientation Along Contig:LEFT-TO-RIGHT with respect to contig
Link to JPEG of genomic mappingMm.2560.jpeg
Best sense EST/protein match:BI738462 matched ref|NP_058039.1| (NM_016759) Rap2 interacting protein; Rap2 interacting protein 8 (E = e-108)
Best antisense EST/protein match:AW108259 matched gb|AAH13441.1|AAH13441 (BC013441) Similar to solute carrier family 3, member 1 [Mus (E = 3e-37)


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
  BF785723 cDNA clone IMAGE:4240544 kidney 5' read Polyadenylation signal
  AW108259 cDNA clone IMAGE:2192817 kidney 3' read Protein similarityPolyadenylation signal
  AI466613 cDNA clone IMAGE:438934 embryo 5' read Protein similarity
  AA007982 cDNA clone IMAGE:438934 embryo 5' read
  BI650341 cDNA clone IMAGE:5336966 tumor, gross tissue 5' read
  AA218148 cDNA clone IMAGE:659547 embryo 5' read
  AI390185 cDNA clone IMAGE:659547 embryo 5' read
  AI116115 cDNA clone IMAGE:1398145 mammary gland 5' read

SENSE ESTs

  BI733291 cDNA clone IMAGE:5360076 retina 5' read
  BI736634 cDNA clone IMAGE:5367314 retina 5' read Protein similarity
  AA103944 cDNA clone IMAGE:556512 embryo 5' read
  BI738462 cDNA clone IMAGE:5366072 retina 5' read Protein similarity
  BG404411 cDNA clone IMAGE:4527270 retina 5' read Protein similarity
  BI989755 cDNA clone (no-name) neural retina
  BF449536 cDNA clone IMAGE:3813981 brain 5' read Protein similarity
  AA968066 cDNA clone IMAGE:1617383 hypothalamus 5' read Protein similarity
  BI737150 cDNA clone IMAGE:5368166 retina 5' read Protein similarity
  BI987390 cDNA clone (no-name) neural retina Polyadenylation signal