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

Candidate UniGene cluster:UniGene Cluster Hs.278431
Description:SCO (cytochrome oxidase deficient, yeast) homolog 2
Best-Of-UniGene (BOU) SequenceNM_005138
Genomic Coordiantes Displayed:Bases 94400 to 105600 of contig Hs22_11683_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.278431.jpeg
Best sense EST/protein match:NM_005138 matched ref|NP_005129.1| (NM_005138) cytochrome oxidase deficient homolog 2 [Homo sapiens] (E = e-128)
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
  BG574390 cDNA clone IMAGE:4705231 mammary adenocarcinoma, cell line 5' read Protein similarity
  BI256716 cDNA clone IMAGE:5113266 choriocarcinoma 5' read Protein similarity
  AA297016 cDNA clone ATCC:122699 brain 5' read Protein similarity
  AI719545 cDNA clone IMAGE:2332509 colon 3' read Protein similarityPolyadenylation signal
  AW074629 cDNA clone IMAGE:2573970 juvenile granulosa tumor 3' read Polyadenylation signal
  AW150846 cDNA clone IMAGE:2630110 uterus 3' read Polyadenylation signal
  AW872780 cDNA clone IMAGE:3124848 squamous cell carcinoma 3' read Polyadenylation signal
  AL044449 cDNA clone DKFZp434G202 testis 3' read Protein similarityPolyadenylation signal
  BG758758 cDNA clone IMAGE:4853309 primary b-cells from tonsils (cell line) 5' read Protein similarity
  AW246550 cDNA clone IMAGE:2822100 small cell carcinoma 3' read Protein similarityPolyadenylation signal
  BF529929 cDNA clone IMAGE:4179892 anaplastic oligodendroglioma with 1p/19q loss 5' read Polyadenylation signal

SENSE ESTs

  BI839135 cDNA clone IMAGE:5229429 pooled pancreas and spleen 5' read Protein similarity
  BG762508 cDNA clone IMAGE:4859388 melanotic melanoma, high mdr (cell line) 5' read Protein similarity
  BI837336 cDNA clone IMAGE:5229428 pooled pancreas and spleen 5' read Protein similarity
  AA001905 cDNA clone IMAGE:427850 pool 3' read 1.0 kbPolyadenylation signal
  T30682 cDNA clone ATCC:100562 spleen 5' read Protein similarity
  AA953262 cDNA clone IMAGE:1573192 kidney 3' read 0.4 kbProtein similarityPolyadenylation signal
  AA857878 cDNA clone IMAGE:1475147 head and neck 3' read 1.6 kbProtein similarityPolyadenylation signal
  AW263806 cDNA clone IMAGE:2753868 two pooled squamous cell carcinomas 3' read Protein similarityPolyadenylation signal
  AI560048 cDNA clone IMAGE:2211138 uterus 3' read 1.5 kbProtein similarityPolyadenylation signal
  AW082921 cDNA clone IMAGE:2583287 moderately differentiated adenocarcinoma 3' read Protein similarityPolyadenylation signal
  AA374910 cDNA clone ATCC:179320 5' read Protein similarity
  BF172196 cDNA clone (no-name) blood Protein similarity
  BE538221 cDNA clone IMAGE:3447838 placenta 5' read Protein similarity
  BG750524 cDNA clone IMAGE:4845051 normal pigmented retinal epithelium 5' read Protein similarity