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

Candidate UniGene cluster:UniGene Cluster Hs.9622
Description:mitochondrial ribosomal protein S18A
Best-Of-UniGene (BOU) SequenceAK055407
Genomic Coordiantes Displayed:Bases 406164 to 466025 of contig Hs6_23565_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.9622.jpeg
Best sense EST/protein match:AK055407 matched dbj|BAB70918.1| (AK055407) unnamed protein product [Homo sapiens] (E = e-154)
Best antisense EST/protein match:BE385927 matched ref|NP_060605.1| (NM_018135) mitochondrial ribosomal protein S18A; mitochondrial (E = e-103)


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
  BF675835 cDNA clone IMAGE:4247822 prostate 5' read
  BE513340 cDNA clone IMAGE:3634353 burkitt lymphoma 5' read Protein similarity
  AV697332 cDNA clone GKCEAH05 hepatocellular carcinoma 5' read
  AA340719 cDNA clone ATCC:142438 kidney 5' read Protein similarity
  BF210442 cDNA clone IMAGE:4102474 from chronic myelogenous leukemia 5' read
  BM014665 cDNA clone IMAGE:5416486 mammary adenocarcinoma, cell line 5' read
  BM006014 cDNA clone IMAGE:5433540 hepatocellular carcinoma, cell line 5' read
  BG474599 cDNA clone IMAGE:4649182 retinoblastoma 5' read
  AA358813 cDNA clone ATCC:162945 lung 5' read Protein similarity
  BI862109 cDNA clone IMAGE:5406744 mammary adenocarcinoma, cell line 5' read
  BE783427 cDNA clone IMAGE:3874618 retinoblastoma 5' read
  AW248314 cDNA clone IMAGE:2820568 small cell carcinoma 5' read
  AA360045 cDNA clone ATCC:164172 lung 5' read Protein similarity
  BF038972 cDNA clone IMAGE:3865472 adenocarcinoma 5' read
  BI819609 cDNA clone IMAGE:5175275 pooled brain, lung, testis 5' read
  AW248978 cDNA clone IMAGE:2820808 small cell carcinoma 5' read
  AA370162 cDNA clone ATCC:174690 prostate 5' read Protein similarity
  BF214121 cDNA clone IMAGE:4078374 from acute myelogenous leukemia 5' read
  BI756071 cDNA clone IMAGE:5194329 brain 5' read
  BI752599 cDNA clone IMAGE:5198506 brain 5' read
  AA370640 cDNA clone ATCC:175096 prostate 5' read Protein similarity
  BI254023 cDNA clone IMAGE:5114590 choriocarcinoma 5' read
  BE270073 cDNA clone IMAGE:3543326 burkitt lymphoma 5' read Protein similarity
  BG506483 cDNA clone IMAGE:4070680 lung 5' read
  BI251905 cDNA clone IMAGE:5086876 hepatocellular carcinoma, cell line 5' read
  BI225441 cDNA clone IMAGE:5093114 burkitt lymphoma 5' read
  BI226285 cDNA clone IMAGE:5095116 burkitt lymphoma 5' read
  BG484154 cDNA clone IMAGE:4618048 lung 5' read
  BG570226 cDNA clone IMAGE:4717422 lung 5' read
  BI224868 cDNA clone IMAGE:5093923 burkitt lymphoma 5' read
  BE385927 cDNA clone IMAGE:3617526 melanotic melanoma 5' read Protein similarity
  BG539770 cDNA clone IMAGE:4692154 lung 5' read
  BI226151 cDNA clone IMAGE:5095091 burkitt lymphoma 5' read
  BF791283 cDNA clone IMAGE:4338148 muscle (skeletal) 5' read
  AI580242 cDNA clone IMAGE:2215205 ovary 3' read 0.7 kb
  BG496399 cDNA clone IMAGE:4672078 mucoepidermoid carcinoma 5' read
  BF683537 cDNA clone IMAGE:4301001 leiomyosarcoma cell line 5' read
  BI199248 cDNA clone IMAGE:4894162 neuroblastoma 5' read
  BE397826 cDNA clone IMAGE:3621141 burkitt lymphoma 5' read Protein similarity
  BE791818 cDNA clone IMAGE:3937438 small cell carcinoma 5' read
  BG750609 cDNA clone IMAGE:4845179 normal pigmented retinal epithelium 5' read
  BF675993 cDNA clone IMAGE:4248325 prostate 5' read
  BF671254 cDNA clone IMAGE:4292376 muscle (skeletal) 5' read
  BG687651 cDNA clone IMAGE:4762550 mucoepidermoid carcinoma 5' read
  BF027044 cDNA clone IMAGE:3954144 melanotic melanoma 5' read
  BG494688 cDNA clone IMAGE:4672430 mucoepidermoid carcinoma 5' read
  AU127744 cDNA clone NT2RP2001969 5' read
  BF344927 cDNA clone IMAGE:4149851 glioblastoma with egfr amplification 5' read
  BG496026 cDNA clone IMAGE:4671217 mucoepidermoid carcinoma 5' read
  W44489 cDNA clone IMAGE:323672 5' read 1.1 kbProtein similarity
  D31255 cDNA clone (no-name) lung 5' read Protein similarity
  BG678452 cDNA clone IMAGE:4751040 squamous cell carcinoma 5' read
  BM045318 cDNA clone IMAGE:5449320 carcinoma, cell line 5' read
  BF680023 cDNA clone IMAGE:4295746 prostate 5' read
  AA371439 cDNA clone ATCC:175837 prostate 5' read Protein similarity
  AA344067 cDNA clone ATCC:145622 gall bladder 5' read Protein similarity
  BI252544 cDNA clone IMAGE:5086876 hepatocellular carcinoma, cell line 3' read
  BI861257 cDNA clone IMAGE:5399770 mammary adenocarcinoma, cell line 5' read
  BI862031 cDNA clone IMAGE:5399953 mammary adenocarcinoma, cell line 5' read
  AI952386 cDNA clone IMAGE:2549259 normal epithelium 3' read 1.0 kb
  AI075360 cDNA clone IMAGE:1682138 3' read 0.9 kb
  AA581980 cDNA clone IMAGE:1085935 germ cell 3' read 0.5 kbPolyadenylation signal
  T53502 cDNA clone IMAGE:68884 placenta 5' read 0.5 kb
  T53503 cDNA clone IMAGE:68884 placenta 3' read 0.5 kb
  AI520736 cDNA clone IMAGE:2129731 pancreas 3' read 0.3 kb
  AI583319 cDNA clone IMAGE:2230227 uterus 3' read 0.6 kb
  AI866201 cDNA clone IMAGE:2426089 uterus 3' read 1.1 kb
  AA313238 cDNA clone ATCC:108632 5' read
  BG222599 cDNA clone IMAGE:4170264 glioblastoma with probably tp53 mutation and without egfr 3' read
  AA370161 cDNA clone ATCC:174690 prostate 3' read
  AI963815 cDNA clone IMAGE:2492745 uterus 3' read 1.1 kb
  AI917931 cDNA clone IMAGE:2288593 uterus 3' read 1.1 kb
  AU150214 cDNA clone NT2RP2001969 3' read
  W44431 cDNA clone IMAGE:323672 3' read 1.1 kb
  BI083833 cDNA clone IMAGE:5014067 epidermoid carcinoma, cell line 5' read

SENSE ESTs

  Z39070 cDNA clone c0za04 brain 3' read
  R20520 cDNA clone IMAGE:26243 brain 3' read 1.0 kb
  BI868674 cDNA clone IMAGE:5401993 adenocarcinoma, cell line 5' read
  BI826340 cDNA clone IMAGE:5168061 medulla 5' read
  BI560147 cDNA clone IMAGE:5296237 testis, cell line 5' read
  T78771 cDNA clone IMAGE:24394 brain 5' read 1.0 kb
  D61437 cDNA clone GEN401H04 brain 5' read
  R12615 cDNA clone IMAGE:26243 brain 5' read 1.0 kb
  Z42946 cDNA clone c0za04 brain