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

Candidate UniGene cluster:UniGene Cluster Hs.204354
Description:ras homolog gene family, member B
Best-Of-UniGene (BOU) SequenceNM_004040
Genomic Coordiantes Displayed:Bases 444000 to 451000 of contig Hs2_5551_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.204354.jpeg
Best sense EST/protein match:BG481665 matched ref|NP_004031.1| (NM_004040) ras homolog gene family, member B; RhoB; Aplysia (E = e-110)
Best antisense EST/protein match:BG900174 matched emb|CAC81058.1| (AJ271468) mitochondrial F1 ATP synthase beta subunit (E = 2e-11)


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
  BI335303 cDNA clone IMAGE:5140278 choriocarcinoma 5' read
  BE869719 cDNA clone IMAGE:3849799 adenocarcinoma 5' read
  BG900174 cDNA clone (no-name) cartilage
  BG820839 cDNA clone IMAGE:4934230 anaplastic oligodendroglioma with 1p/19q loss 5' read
  BG896264 cDNA clone (no-name) cartilage
  BI254785 cDNA clone IMAGE:5113229 choriocarcinoma 5' read
  BI758613 cDNA clone IMAGE:5197547 brain 5' read Protein similarity
  BI772141 cDNA clone IMAGE:5204146 pooled lung and spleen 5' read
  BF346649 cDNA clone IMAGE:4156786 anaplastic oligodendroglioma with 1p/19q loss 5' read
  AI924238 cDNA clone IMAGE:2444388 uterus 3' read 1.7 kbProtein similarity
  AI926081 cDNA clone IMAGE:2457969 stomach 3' read 1.5 kbProtein similarity
  BI489625 cDNA clone IMAGE:5173341 pooled brain, lung, testis 5' read Protein similarity
  BI490511 cDNA clone IMAGE:5173365 pooled brain, lung, testis 3' read Protein similarity
  R43032 cDNA clone IMAGE:31671 brain 3' read 1.5 kbProtein similarity
  AI620767 cDNA clone IMAGE:2258951 stomach 3' read 1.8 kbProtein similarity
  BI490270 cDNA clone IMAGE:5173341 pooled brain, lung, testis 3' read Protein similarity
  BG054597 cDNA clone IMAGE:3303157 dorsal root ganglia 3' read Protein similarity
  BI490465 cDNA clone IMAGE:5173364 pooled brain, lung, testis 3' read Protein similarity
  BI770000 cDNA clone IMAGE:5203224 pooled lung and spleen 5' read Protein similarity
  BI910601 cDNA clone IMAGE:5218514 leukocyte 5' read Protein similarity
  BI490200 cDNA clone IMAGE:5173340 pooled brain, lung, testis 3' read Protein similarity
  AI084707 cDNA clone IMAGE:1681542 3' read 0.7 kbProtein similarity
  AI932478 cDNA clone IMAGE:2454115 pancreas 3' read 1.8 kbProtein similarity
  AW026917 cDNA clone IMAGE:2534255 stomach 3' read Protein similarity
  AI963060 cDNA clone IMAGE:2508628 uterus 3' read 2.0 kbProtein similarity
  AI868833 cDNA clone IMAGE:2322879 pancreas 3' read 1.9 kbProtein similarity
  AI824482 cDNA clone IMAGE:2274965 uterus 3' read 1.8 kbProtein similarity
  AI367333 cDNA clone IMAGE:1989291 uterus 3' read 2.1 kbProtein similarity

SENSE ESTs

  AI679011 cDNA clone IMAGE:2255473 stomach 3' read 1.4 kb
  BI492510 cDNA clone IMAGE:2484424 ear 3' read
  AW511967 cDNA clone IMAGE:2807543 kidney 3' read Polyadenylation signal
  AI955115 cDNA clone IMAGE:2490977 uterus 3' read 1.2 kb
  BG929186 cDNA clone (no-name) cartilage
  BI496274 cDNA clone IMAGE:2540085 ear 3' read Polyadenylation signal
  N95475 cDNA clone IMAGE:310052 3' read 1.2 kb
  AV702595 cDNA clone ADBCNE03 adrenal gland 5' read
  AW021554 cDNA clone IMAGE:2484424 ear 5' read
  N66895 cDNA clone IMAGE:287173 ear 3' read Polyadenylation signal
  AI087078 cDNA clone IMAGE:1680745 3' read 0.8 kbProtein similarity
  AI879859 cDNA clone IMAGE:2173365 colon 3' read
  AA564183 cDNA clone IMAGE:985361 prostate 3' read 0.6 kb
  AI919344 cDNA clone IMAGE:2255146 stomach 3' read 1.7 kb
  AA348855 cDNA clone ATCC:150018 adrenal gland 5' read
  AI864745 cDNA clone IMAGE:2411127 lymph 3' read 0.8 kb
  D58771 cDNA clone GEN510H01 placenta 5' read
  Z41516 cDNA clone czwg06 brain 3' read
  AI720265 cDNA clone IMAGE:2334045 colon 3' read
  AW262502 cDNA clone IMAGE:2757430 three pooled meningiomas 3' read
  AW148508 cDNA clone IMAGE:2618153 kidney 3' read
  AW103688 cDNA clone IMAGE:2614407 brain 3' read Polyadenylation signal
  BI963845 cDNA clone (no-name) islets of langerhans 3' read Polyadenylation signal
  H88963 cDNA clone IMAGE:253141 ear 3' read 0.5 kb
  AV707557 cDNA clone ADBBGC10 adrenal gland 5' read
  AW674545 cDNA clone IMAGE:2901262 choriocarcinoma 3' read Polyadenylation signal
  BI964141 cDNA clone (no-name) islets of langerhans 5' read
  AW169674 cDNA clone IMAGE:2658768 uterus 3' read Polyadenylation signal
  AI601262 cDNA clone IMAGE:2152339 colon 3' read Polyadenylation signal
  AW511711 cDNA clone IMAGE:2805440 uterus 3' read Polyadenylation signal
  H88546 cDNA clone IMAGE:252940 ear 5' read 0.5 kb
  AW169428 cDNA clone IMAGE:2658371 uterus 3' read
  AW084448 cDNA clone IMAGE:2588493 esophagus 3' read Polyadenylation signal
  F27912 cDNA clone s4000026G11 muscle
  BE677092 cDNA clone IMAGE:3279258 dorsal root ganglia 3' read
  AW028363 cDNA clone IMAGE:2541214 stomach 3' read 0.9 kb
  H88508 cDNA clone IMAGE:252940 ear 3' read 0.5 kb
  AA129963 cDNA clone IMAGE:526542 3' read 2.1 kb
  BI916717 cDNA clone IMAGE:5242704 brain 5' read