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

Candidate UniGene cluster:UniGene Cluster Mm.148209
Description:synaptonemal complex protein 3
Best-Of-UniGene (BOU) SequenceNM_011517
Genomic Coordiantes Displayed:Bases 1377531 to 1396603 of contig GA_x5J8B7W5VG6
BOU Orientation Along Contig:LEFT-TO-RIGHT with respect to contig
Link to JPEG of genomic mappingMm.148209.jpeg
Best sense EST/protein match:NM_011517 matched ref|NP_035647.1| (NM_011517) synaptonemal complex protein 3 [Mus musculus] (E = e-132)
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
  AI047439 cDNA clone IMAGE:1450386 liver 3' read Protein similarityPolyadenylation signal
  BF322023 cDNA clone IMAGE:3411509 spleen 3' read Protein similarityPolyadenylation signal
  AA980299 cDNA clone IMAGE:1348506 mammary gland 5' read Protein similarity
  AA450687 cDNA clone IMAGE:850127 mammary gland 5' read Protein similarity
  AA710261 cDNA clone IMAGE:1166429 colon 5' read Protein similarity
  AA967222 cDNA clone IMAGE:1331784 mammary gland 5' read Protein similarity
  AA472268 cDNA clone IMAGE:875107 mammary gland 5' read Protein similarity
  AA510111 cDNA clone IMAGE:891054 mammary gland 5' read Protein similarity
  AI529009 cDNA clone IMAGE:1448724 mammary gland 5' read
  AA451282 cDNA clone IMAGE:850427 mammary gland 5' read
  AA276721 cDNA clone IMAGE:777467 spleen 5' read
  AA458082 cDNA clone IMAGE:864279 mammary gland 5' read
  AA646652 cDNA clone IMAGE:820819 mammary gland 5' read

SENSE ESTs

  BG088651 cDNA clone H3155H10 5' read Protein similarity
  AA472009 cDNA clone IMAGE:874980 mammary gland 5' read Protein similarity
  AA458330 cDNA clone IMAGE:864615 mammary gland 5' read Protein similarity
  BG076124 cDNA clone H3155H10 3' read Protein similarityPolyadenylation signal
  AA879484 cDNA clone IMAGE:1230236 mammary gland 5' read Protein similarity
  AW558534 cDNA clone L0295C05 3' read Protein similarityPolyadenylation signal
  AW558202 cDNA clone L0291H08 3' read Protein similarityPolyadenylation signal
  AW557691 cDNA clone L0285A06 3' read Protein similarityPolyadenylation signal
  AA591197 cDNA clone IMAGE:990120 embryo 5' read Protein similarity
  AW558236 cDNA clone L0292D01 3' read Protein similarityPolyadenylation signal
  AW555427 cDNA clone L0255G07 3' read Protein similarityPolyadenylation signal
  AA510073 cDNA clone IMAGE:863320 mammary gland 5' read