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

Candidate UniGene cluster:UniGene Cluster Mm.3484
Description:Niemann Pick type C1
Best-Of-UniGene (BOU) SequenceNM_008720
Genomic Coordiantes Displayed:Bases 7917000 to 8008000 of contig GA_x5J8B7W7TN3
BOU Orientation Along Contig:LEFT-TO-RIGHT with respect to contig
Link to JPEG of genomic mappingMm.3484.jpeg
Best sense EST/protein match:BE916280 matched ref|NP_032746.1| (NM_008720) Niemann Pick type C1 [Mus musculus] (E = e-100)
Best antisense EST/protein match:AA896185 matched dbj|BAB71377.1| (AK057192) unnamed protein product [Homo sapiens] (E = e-114)


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
  C78953 cDNA clone J0057H05 embryo 3' read
  BG066364 cDNA clone H3042B04 3' read
  BG079578 cDNA clone H3042B04 5' read Protein similarity
  BG244552 cDNA clone IMAGE:4485317 tumor, biopsy sample 5' read Polyadenylation signal
  BI686713 cDNA clone IMAGE:5352853 infiltrating ductal carcinoma 5' read Polyadenylation signal
  BG244395 cDNA clone IMAGE:4485293 tumor, biopsy sample 5' read Polyadenylation signal
  AW411631 cDNA clone IMAGE:2812360 tumor, gross tissue 3' read Protein similarityPolyadenylation signal
  AW212978 cDNA clone IMAGE:2647831 tumor, biopsy sample 3' read Protein similarityPolyadenylation signal
  BF660882 cDNA clone IMAGE:3822087 spleen 3' read Polyadenylation signal
  BG070770 cDNA clone H3091A01 3' read Polyadenylation signal
  BF453440 cDNA clone IMAGE:3822087 spleen 5' read
  BG083686 cDNA clone H3091A01 5' read
  W56979 cDNA clone IMAGE:368755 embryo 5' read
  AA002656 cDNA clone IMAGE:436913 embryo 5' read Protein similarity
  AA896185 cDNA clone IMAGE:1279775 macrophage 5' read Protein similarity
  AA397144 cDNA clone IMAGE:804957 embryo 5' read Protein similarity
  AA517379 cDNA clone IMAGE:902448 muscle 5' read Protein similarity
  BG172072 cDNA clone IMAGE:4456273 tumor, biopsy sample 5' read