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

Candidate UniGene cluster:UniGene Cluster Mm.36753
Description:RIKEN cDNA 2610043A19 gene
Best-Of-UniGene (BOU) SequenceNM_028119
Genomic Coordiantes Displayed:Bases 4368480 to 4403839 of contig GA_x5J8B7W5LKQ
BOU Orientation Along Contig:LEFT-TO-RIGHT with respect to contig
Link to JPEG of genomic mappingMm.36753.jpeg
Best sense EST/protein match:BI078124 matched gb|AAK16810.1| (AY027937) damage-specific DNA-binding protein 2 [Mus musculus] (E = 5e-80)
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
  AI841898 cDNA clone UI-M-AO0-acd-e-01-0-UI 3' read
  AI131584 cDNA clone IMAGE:1499181 embryo 3' read
  BF179238 cDNA clone IMAGE:4038071 tumor, gross tissue 5' read Protein similarity
  AI156584 cDNA clone IMAGE:1493929 mammary gland 5' read
  AI931941 cDNA clone IMAGE:2135703 kidney 3' read Polyadenylation signal
  BI456507 cDNA clone IMAGE:5251762 tumor, gross tissue 5' read
  AV287229 cDNA clone 5031432H03 ovary and uterus
  BG060453 cDNA clone L0903B10 3' read

SENSE ESTs

  BI872979 cDNA clone IMAGE:5401693 retina 5' read Protein similarity
  BI695507 cDNA clone IMAGE:5372525 tumor, biopsy sample 5' read Protein similarity
  BI731379 cDNA clone IMAGE:5360936 retina 5' read
  BI556935 cDNA clone IMAGE:5292598 tumor, gross tissue 5' read
  BG297230 cDNA clone IMAGE:4506753 retina 5' read Protein similarity
  BF137513 cDNA clone IMAGE:4008697 tumor, metastatic to mammary 5' read Protein similarity
  BG292873 cDNA clone IMAGE:4501296 retina 5' read Protein similarity
  BI078124 cDNA clone IMAGE:5004511 tumor, biopsy sample 5' read Protein similarity
  BG068313 cDNA clone H3064B01 3' read Protein similarityPolyadenylation signal
  BG081347 cDNA clone H3064B01 5' read Protein similarity
  BG917343 cDNA clone IMAGE:4946051 infiltrating ductal carcinoma 5' read Protein similarity
  AA475839 cDNA clone IMAGE:875274 mammary gland 5' read Protein similarity
  AU022561 cDNA clone J0416F04 unfertilized egg 3' read Protein similarityPolyadenylation signal
  C86680 cDNA clone J0231B07 embryo 3' read Polyadenylation signal
  AU021984 cDNA clone J0405F02 unfertilized egg 3' read Polyadenylation signal
  AV222404 cDNA clone 3732424L12 embryonic body below diaphragm region