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

Candidate UniGene cluster:UniGene Cluster Hs.276916
Description:nuclear receptor subfamily 1, group D, member 1
Best-Of-UniGene (BOU) SequenceNM_021724
Genomic Coordiantes Displayed:Bases 140000 to 210000 of contig Hs17_11001_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.276916.jpeg
Best sense EST/protein match:BG033127 matched ref|NP_068370.1| (NM_021724) nuclear receptor subfamily 1, group D, member 1; thyroid (E = e-112)
Best antisense EST/protein match:BM020914 matched sp|O97716|THA_PIG THYROID HORMONE RECEPTOR ALPHA (C-ERBA-ALPHA) (C-ERBA-1) (E = 9e-54)


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
  BG746139 cDNA clone IMAGE:4850169 spleen 3' read Protein similarity
  AL039728 cDNA clone DKFZp434L0411 testis 5' read
  BF345849 cDNA clone IMAGE:4153281 anaplastic oligodendroglioma with 1p/19q loss 5' read
  BG031596 cDNA clone IMAGE:4394002 mammary adenocarcinoma, cell line 5' read
  AW517560 cDNA clone IMAGE:2791761 uterus 3' read
  BE884752 cDNA clone IMAGE:3908489 leiomyosarcoma 5' read
  AL043801 cDNA clone DKFZp434P2327 testis 3' read
  BM044347 cDNA clone IMAGE:5447292 carcinoma, cell line 5' read
  BE262895 cDNA clone IMAGE:3509262 neuroblastoma 5' read
  AL134313 cDNA clone DKFZp547M144 brain 5' read
  BM020914 cDNA clone IMAGE:5429675 astrocytoma grade iv, cell line 5' read Protein similarity
  BG827952 cDNA clone IMAGE:4904867 rhabdomyosarcoma 5' read Protein similarity
  BF530099 cDNA clone IMAGE:4180215 anaplastic oligodendroglioma with 1p/19q loss 5' read Protein similarity
  T66180 cDNA clone IMAGE:22074 brain 3' read 1.3 kb
  BF528454 cDNA clone IMAGE:4181404 anaplastic oligodendroglioma with 1p/19q loss 5' read Protein similarity
  AI811521 cDNA clone IMAGE:2262498 uterus 3' read 2.6 kb
  AA602782 cDNA clone IMAGE:1116612 breast 3' read 0.6 kb
  T16373 cDNA clone NIB1214 brain 3' read
  F09846 cDNA clone c37b09 brain 3' read
  F03801 cDNA clone c2ad02 brain 3' read
  F02406 cDNA clone c0yb11 brain 3' read
  AI608664 cDNA clone IMAGE:2260059 tumor, 5 pooled (see description) 3' read 1.6 kb
  BG152611 cDNA clone IMAGE:4148183 glioblastoma without egfr amplification 3' read
  AI521540 cDNA clone IMAGE:2183057 stomach 3' read 1.1 kb
  BF339018 cDNA clone IMAGE:4182984 glioblastoma with egfr amplification 5' read Protein similarity
  BG911678 cDNA clone IMAGE:4939940 anaplastic oligodendroglioma with 1p/19q loss 5' read
  BG911462 cDNA clone IMAGE:4941134 anaplastic oligodendroglioma with 1p/19q loss 5' read Protein similarity
  BG031094 cDNA clone IMAGE:4393236 mammary adenocarcinoma, cell line 5' read Protein similarity
  BM006724 cDNA clone IMAGE:5421226 ductal carcinoma, cell line 5' read Protein similarity
  BM006834 cDNA clone IMAGE:5421188 ductal carcinoma, cell line 5' read Protein similarity

SENSE ESTs

  AW128962 cDNA clone IMAGE:2615388 brain 3' read Protein similarity
  AL118890 cDNA clone DKFZp761O0111 amygdala 3' read Protein similarity
  F18898 cDNA clone NOTAVAIL03495
  T29878 cDNA clone ATCC:107786 thyroid 5' read Protein similarity
  AA151679 cDNA clone IMAGE:588317 3' read
  AA319300 cDNA clone ATCC:120280 adrenal gland 5' read Protein similarity
  BG033127 cDNA clone IMAGE:4401973 mammary adenocarcinoma, cell line 5' read Protein similarity
  BG912202 cDNA clone IMAGE:4944815 anaplastic oligodendroglioma with 1p/19q loss 5' read Protein similarity
  BF690246 cDNA clone IMAGE:4298592 melanotic melanoma, high mdr (cell line) 3' read Protein similarity
  AL137978 cDNA clone DKFZp761E2315 amygdala 5' read Protein similarity
  BG747927 cDNA clone IMAGE:4842498 normal pigmented retinal epithelium 5' read Protein similarity
  AA371902 cDNA clone ATCC:176283 brain 5' read Protein similarity
  AA151759 cDNA clone IMAGE:588317 5' read Protein similarity
  AA378462 cDNA clone ATCC:182864 synovial membrane 5' read Protein similarity
  BG821946 cDNA clone IMAGE:4865602 adenocarcinoma cell line 5' read Protein similarity
  AA324696 cDNA clone ATCC:125184 brain 5' read Protein similarity
  AA326566 cDNA clone ATCC:127161 brain 5' read Protein similarity
  BG763156 cDNA clone IMAGE:4860282 melanotic melanoma, high mdr (cell line) 5' read Protein similarity
  AA308936 cDNA clone ATCC:127447 brain 5' read Protein similarity
  BG386717 cDNA clone IMAGE:4582964 adenocarcinoma cell line 5' read Protein similarity
  AA324844 cDNA clone ATCC:125572 brain 5' read
  BM008888 cDNA clone IMAGE:5422937 adenocarcinoma 5' read Protein similarity
  BM008824 cDNA clone IMAGE:5422936 adenocarcinoma 5' read Protein similarity
  BF689697 cDNA clone IMAGE:4298592 melanotic melanoma, high mdr (cell line) 5' read Protein similarity
  BF306279 cDNA clone IMAGE:4138977 rhabdomyosarcoma 5' read
  BG911958 cDNA clone IMAGE:4941595 anaplastic oligodendroglioma with 1p/19q loss 5' read Protein similarity
  AL118889 cDNA clone DKFZp761O0111 amygdala 5' read Protein similarity
  BF980671 cDNA clone IMAGE:4395719 duodenal adenocarcinoma, cell line 5' read Protein similarity
  BI907989 cDNA clone IMAGE:5217991 leukocyte 5' read
  BI222346 cDNA clone IMAGE:5103067 choriocarcinoma 5' read Protein similarity
  BI489872 cDNA clone IMAGE:5172989 pooled brain, lung, testis 5' read Protein similarity
  BI818667 cDNA clone IMAGE:5174489 pooled brain, lung, testis 5' read Protein similarity