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

Candidate UniGene cluster:UniGene Cluster Hs.520
Description:nuclear receptor subfamily 2, group C, member 2
Best-Of-UniGene (BOU) SequenceNM_003298
Genomic Coordiantes Displayed:Bases 2418000 to 2432000 of contig Hs3_5925_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.520.jpeg
Best sense EST/protein match:BF307171 matched ref|NP_003289.1| (NM_003298) nuclear receptor subfamily 2, group C, member 2; (E = e-108)
Best antisense EST/protein match:BI088264 matched prf||2124399A transposase-like protein [Homo sapiens] (E = 7e-42)

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).

  AA361295 cDNA clone ATCC:165465 lymph 5' read
  Z40764 cDNA clone c2fb09 brain 3' read
  BG028761 cDNA clone IMAGE:4387693 osteosarcoma, cell line 5' read Protein similarity
  BG740276 cDNA clone IMAGE:4776023 skin 5' read Protein similarity
  AI571166 cDNA clone IMAGE:2176389 uterus 3' read 2.3 kbPolyadenylation signal
  AI888408 cDNA clone IMAGE:2446013 stomach 3' read 1.4 kbPolyadenylation signal
  AW613860 cDNA clone IMAGE:2968964 2 pooled high-grade transitional cell tumors 3' read Polyadenylation signal
  AI924957 cDNA clone IMAGE:2446562 stomach 3' read 2.2 kbPolyadenylation signal
  D62137 cDNA clone GEN240H01 aorta 5' read
  AI572410 cDNA clone IMAGE:2191395 uterus 3' read 1.7 kbPolyadenylation signal
  AA701232 cDNA clone IMAGE:434864 pool 3' read Polyadenylation signal
  AI888555 cDNA clone IMAGE:2446129 stomach 3' read 1.6 kbPolyadenylation signal
  AI927263 cDNA clone IMAGE:2446385 stomach 3' read 2.2 kbPolyadenylation signal
  AW510438 cDNA clone IMAGE:2883296 uterus 3' read Polyadenylation signal
  AA176496 cDNA clone IMAGE:611264 muscle 3' read Polyadenylation signal
  AI612794 cDNA clone IMAGE:2190653 uterus 3' read 1.3 kbPolyadenylation signal
  AW148961 cDNA clone IMAGE:2617357 kidney 3' read Polyadenylation signal
  BG106489 cDNA clone IMAGE:4384676 lymphoma, cell line 5' read Protein similarity
  BI088264 cDNA clone IMAGE:4994524 placenta 5' read Protein similarity


  BE884218 cDNA clone IMAGE:3907723 leiomyosarcoma 5' read
  R62465 cDNA clone IMAGE:36475 brain 3' read 0.9 kbPolyadenylation signal
  BE541413 cDNA clone IMAGE:3452487 placenta 5' read
  BF981401 cDNA clone IMAGE:4400327 duodenal adenocarcinoma, cell line 5' read Protein similarity
  BF307171 cDNA clone IMAGE:4137095 rhabdomyosarcoma 5' read Protein similarity
  BI465304 cDNA clone IMAGE:5272493 testis, cell line 5' read Protein similarity
  AA365060 cDNA clone ATCC:169784 brain 5' read Protein similarity