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

Candidate UniGene cluster:UniGene Cluster Mm.30127
Description:testis derived transcript 3, pseudogene
Best-Of-UniGene (BOU) SequenceAF198092
Genomic Coordiantes Displayed:Bases 4029622 to 4069774 of contig GA_x5J8B7W70KC
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingMm.30127.jpeg
Best sense EST/protein match:AF198092 matched gb|AAF04863.1|AF198092_1 (AF198092) RP42 [Mus musculus] (E = e-149)
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
  BI466459 cDNA clone (no-name) pancreas 5' read
  BI499181 cDNA clone (no-name) pancreas 5' read
  AA444934 cDNA clone IMAGE:831727 mammary gland 5' read
  BI465420 cDNA clone (no-name) pancreas 5' read
  BG798826 cDNA clone (no-name) pancreas 5' read
  BG798582 cDNA clone (no-name) pancreas 5' read
  BG797210 cDNA clone (no-name) pancreas 3' read
  BG797436 cDNA clone (no-name) pancreas 3' read
  BI466259 cDNA clone (no-name) pancreas 3' read
  BI498989 cDNA clone (no-name) pancreas 3' read
  BI465608 cDNA clone (no-name) pancreas 3' read

SENSE ESTs

  BI158695 cDNA clone IMAGE:5061907 tumor, gross tissue 5' read
  AA162539 cDNA clone IMAGE:598187 spleen 5' read
  AA840124 cDNA clone IMAGE:1433869 uterus 5' read
  BI965933 cDNA clone (no-name) 5' read
  AA107842 cDNA clone IMAGE:556904 embryo 5' read
  AI152945 cDNA clone IMAGE:1449672 uterus 5' read
  AW210356 cDNA clone IMAGE:2102087 optic cup + lens vesicle 5' read
  AW011886 cDNA clone IMAGE:2582657 liver 5' read
  AA982640 cDNA clone IMAGE:1617617 hypothalamus 5' read
  BF608119 cDNA clone ICRFp522L02101 whole embryo 5' read
  BE456777 cDNA clone IMAGE:2797570 pachytene spermatocyte 3' read
  AI120475 cDNA clone IMAGE:1498250 embryo 3' read
  AI787340 cDNA clone IMAGE:1924926 liver 3' read
  BG067196 cDNA clone H3051F07 3' read
  BE632934 cDNA clone IMAGE:3415150 spleen 3' read
  AU016567 cDNA clone J0726G12 embryo 3' read
  AA839721 cDNA clone IMAGE:1293705 macrophage 5' read
  BE687502 cDNA clone IMAGE:3415150 spleen 5' read Protein similarity
  BE634900 cDNA clone IMAGE:3413142 spleen 3' read Protein similarityPolyadenylation signal
  BG962913 cDNA clone IMAGE:4982540 colon 5' read
  AA571446 cDNA clone IMAGE:989335 embryo 5' read Protein similarity
  BI696726 cDNA clone IMAGE:5375071 tumor, biopsy sample 5' read Protein similarity
  BF319754 cDNA clone IMAGE:3664248 round spermatids, pooled from multiple mice 3' read Protein similarityPolyadenylation signal
  BG080266 cDNA clone H3051F07 5' read Protein similarity
  BE914689 cDNA clone IMAGE:3967632 tumor, biopsy sample 5' read Protein similarity
  BE633407 cDNA clone IMAGE:3413142 spleen 5' read Protein similarity
  AI789521 cDNA clone IMAGE:1745750 testis 5' read Protein similarity
  BF137181 cDNA clone IMAGE:4012394 tumor, metastatic to mammary 5' read Protein similarity
  W87997 cDNA clone IMAGE:419123 embryo 5' read Protein similarity
  AI036914 cDNA clone IMAGE:1746136 testis 5' read Protein similarity
  BG101230 cDNA clone IMAGE:3664824 round spermatids, pooled from multiple mice 5' read Protein similarity