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

Candidate UniGene cluster:UniGene Cluster Hs.301254
Description:surfactant, pulmonary-associated protein A1
Best-Of-UniGene (BOU) SequenceNM_005411
Genomic Coordiantes Displayed:Bases 120000 to 330000 of contig Hs10_8905_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.301254.jpeg
Best sense EST/protein match:BI820025 matched ref|NP_005402.2| (NM_005411) surfactant, pulmonary-associated protein A1; pulmonary (E = 1e-46)
Best antisense EST/protein match:AI984224 matched ref|NP_008857.1| (NM_006926) surfactant, pulmonary-associated protein A2 [Homo (E = 1e-27)


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
  BI490220 cDNA clone IMAGE:5173421 pooled brain, lung, testis 3' read Protein similarity
  BI819972 cDNA clone IMAGE:5176233 pooled brain, lung, testis 5' read Protein similarity
  BI489588 cDNA clone IMAGE:5173421 pooled brain, lung, testis 5' read
  BI490135 cDNA clone IMAGE:5173432 pooled brain, lung, testis 5' read Protein similarity
  BI490190 cDNA clone IMAGE:5173432 pooled brain, lung, testis 3' read Protein similarity
  AW275908 cDNA clone IMAGE:2753137 two pooled squamous cell carcinomas 3' read Protein similarity
  BI489602 cDNA clone IMAGE:5173473 pooled brain, lung, testis 5' read Protein similarity
  AU100160 cDNA clone LNG15849 Protein similarity
  AI984224 cDNA clone IMAGE:2562147 four pooled poorly-differentiated adenocarcinomas 3' read 0.6 kbProtein similarity
  AI950715 cDNA clone IMAGE:2547447 two pooled squamous cell carcinomas 3' read 0.6 kbPolyadenylation signal

SENSE ESTs

  AW268523 cDNA clone IMAGE:2816650 two pooled squamous cell carcinomas 3' read Polyadenylation signal
  AW262256 cDNA clone IMAGE:2752363 two pooled squamous cell carcinomas 3' read Polyadenylation signal
  AW276064 cDNA clone IMAGE:2753541 two pooled squamous cell carcinomas 3' read
  BG541108 cDNA clone IMAGE:4694730 lung 5' read Protein similarity
  BG537519 cDNA clone IMAGE:4690546 lung 5' read
  BG539680 cDNA clone IMAGE:4692107 lung 5' read
  BG507052 cDNA clone IMAGE:4071381 lung 5' read
  BG548351 cDNA clone IMAGE:4703119 lung 5' read
  BG484226 cDNA clone IMAGE:4618308 lung 5' read
  BI763212 cDNA clone IMAGE:5190372 pooled colon, kidney, stomach 5' read Protein similarity
  BI820025 cDNA clone IMAGE:5178361 pooled brain, lung, testis 5' read Protein similarity
  BI820937 cDNA clone IMAGE:5175402 pooled brain, lung, testis 5' read Protein similarity
  BI821621 cDNA clone IMAGE:5177390 pooled brain, lung, testis 5' read Protein similarity
  BI820202 cDNA clone IMAGE:5177864 pooled brain, lung, testis 5' read Protein similarity
  BI819785 cDNA clone IMAGE:5182292 pooled brain, lung, testis 5' read Protein similarity
  BI822825 cDNA clone IMAGE:5180841 pooled brain, lung, testis 5' read Protein similarity