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

Candidate UniGene cluster:UniGene Cluster Hs.82407
Description:chemokine (C-X-C motif) ligand 16
Best-Of-UniGene (BOU) SequenceNM_022059
Genomic Coordiantes Displayed:Bases 416000 to 444000 of contig Hs17_10980_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.82407.jpeg
Best sense EST/protein match:BI760692 matched ref|NP_071342.1| (NM_022059) chemokine (C-X-C motif) ligand 16; CXC chemokine ligand (E = e-110)
Best antisense EST/protein match:AI878846 matched gb|AAF28974.1|AF161414_1 (AF161414) HSPC296 [Homo sapiens] (E = 2e-66)


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
  AA355467 cDNA clone ATCC:157590 5' read Protein similarity
  BI260289 cDNA clone IMAGE:5112333 choriocarcinoma 5' read
  BG029751 cDNA clone IMAGE:4391322 mammary adenocarcinoma, cell line 5' read
  AI878846 cDNA clone IMAGE:2518191 frontal lobe 5' read Protein similarity
  W87325 cDNA clone IMAGE:416868 pool 5' read 1.4 kbProtein similarity
  AW163652 cDNA clone IMAGE:2783082 frontal lobe 5' read Protein similarity
  BG503911 cDNA clone IMAGE:4665361 embryonal carcinoma 5' read
  BG900683 cDNA clone (no-name) cartilage
  BG422460 cDNA clone IMAGE:4587536 renal cell adenocarcinoma 5' read
  BG402774 cDNA clone IMAGE:4525451 transitional cell papilloma, cell line 5' read
  BE795748 cDNA clone IMAGE:3945063 small cell carcinoma 5' read
  BG772659 cDNA clone IMAGE:4837677 testis, cell line 5' read
  AA318198 cDNA clone ATCC:118676 eye 5' read Protein similarity
  W86753 cDNA clone IMAGE:416868 pool 3' read 1.4 kbPolyadenylation signal
  AA676745 cDNA clone IMAGE:460049 pool 3' read Polyadenylation signal
  AI453422 cDNA clone IMAGE:2142277 stomach 3' read 0.8 kbPolyadenylation signal
  AA700833 cDNA clone IMAGE:436096 pool 3' read Polyadenylation signal
  AI347645 cDNA clone IMAGE:1916722 kidney 3' read 0.5 kbPolyadenylation signal
  AI308994 cDNA clone IMAGE:1914979 kidney 3' read 0.8 kb
  AA938566 cDNA clone IMAGE:1574008 kidney 3' read 0.8 kb
  AA705046 cDNA clone IMAGE:461486 pool 3' read
  AI934316 cDNA clone IMAGE:2454065 pancreas 3' read 0.8 kb
  AI934328 cDNA clone IMAGE:2454089 pancreas 3' read 0.9 kb
  AW157658 cDNA clone IMAGE:2783082 frontal lobe 3' read
  AV740051 cDNA clone CBFAWF08 cord blood 5' read
  AI879404 cDNA clone IMAGE:2518191 frontal lobe 3' read
  AA865299 cDNA clone IMAGE:1455336 kidney 3' read 0.7 kbPolyadenylation signal
  AL601310 cDNA clone DKFZp313N1940 3' read Protein similarity

SENSE ESTs

  AL042595 cDNA clone DKFZp434K0421 testis 3' read
  BF340510 cDNA clone IMAGE:4184794 glioblastoma with egfr amplification 5' read Protein similarityPolyadenylation signal
  BG283547 cDNA clone IMAGE:4520100 adenocarcinoma, cell line 5' read
  AI696421 cDNA clone IMAGE:2264160 uterus 3' read 1.6 kbPolyadenylation signal
  AI312518 cDNA clone IMAGE:1917592 kidney 3' read 0.5 kb
  AL042594 cDNA clone DKFZp434K0421 testis 5' read Polyadenylation signal
  AA146673 cDNA clone IMAGE:588671 3' read Polyadenylation signal
  AA335766 cDNA clone ATCC:137443 testis 5' read
  AA147076 cDNA clone IMAGE:588626 3' read Polyadenylation signal
  AA151842 cDNA clone IMAGE:566312 3' read Polyadenylation signal
  AI828235 cDNA clone IMAGE:2421870 pancreas 3' read 1.6 kbPolyadenylation signal
  AI061333 cDNA clone IMAGE:1700767 kidney 3' read Polyadenylation signal
  AW512773 cDNA clone IMAGE:2792478 uterus 3' read Polyadenylation signal
  AI358175 cDNA clone IMAGE:1991532 uterus 3' read 1.0 kbPolyadenylation signal
  AI969252 cDNA clone IMAGE:2546832 two pooled squamous cell carcinomas 3' read 1.4 kbPolyadenylation signal
  AI344574 cDNA clone IMAGE:1917500 kidney 3' read 1.1 kbPolyadenylation signal
  AI624569 cDNA clone IMAGE:2230091 pancreas 3' read 1.4 kbPolyadenylation signal
  N22788 cDNA clone IMAGE:254772 nose 3' read 0.8 kbPolyadenylation signal
  AA149360 cDNA clone IMAGE:588334 3' read Polyadenylation signal
  AA365415 cDNA clone ATCC:170162 brain 5' read
  AA296569 cDNA clone ATCC:194201 uterus 5' read
  AA130627 cDNA clone IMAGE:586761 3' read 1.7 kbPolyadenylation signal
  BG569763 cDNA clone IMAGE:4717193 lung 5' read
  AA149688 cDNA clone IMAGE:566312 5' read
  BF209282 cDNA clone IMAGE:4097038 from chronic myelogenous leukemia 5' read
  BG540579 cDNA clone IMAGE:4695031 lung 5' read
  AA149359 cDNA clone IMAGE:588334 5' read
  BI520755 cDNA clone IMAGE:5163718 medulla 3' read
  AA146672 cDNA clone IMAGE:588671 5' read
  AA130776 cDNA clone IMAGE:586761 5' read 1.7 kb
  BI760692 cDNA clone IMAGE:5185339 pooled colon, kidney, stomach 5' read
  BM017756 cDNA clone IMAGE:5426943 astrocytoma grade iv, cell line 5' read
  BI825667 cDNA clone IMAGE:5164332 medulla 5' read
  BI758791 cDNA clone IMAGE:5194557 brain 5' read
  BI826797 cDNA clone IMAGE:5169117 medulla 5' read
  BG704390 cDNA clone IMAGE:4820004 hippocampus, cell line 5' read
  AA366329 cDNA clone ATCC:171162 pancreas 5' read
  BI464196 cDNA clone IMAGE:5273206 testis, cell line 5' read
  BI827563 cDNA clone IMAGE:5165598 medulla 5' read Protein similarity
  BG771664 cDNA clone IMAGE:4837010 testis, cell line 5' read Protein similarity
  BI464203 cDNA clone IMAGE:5269272 testis, cell line 5' read Protein similarity
  BI520413 cDNA clone IMAGE:5163718 medulla 5' read
  BI547793 cDNA clone IMAGE:5263217 hippocampus, cell line 5' read
  BI761021 cDNA clone IMAGE:5188525 pooled colon, kidney, stomach 5' read Protein similarity
  BI825854 cDNA clone IMAGE:5168372 medulla 5' read Protein similarity
  BI827054 cDNA clone IMAGE:5167399 medulla 5' read
  BI830248 cDNA clone IMAGE:5165007 medulla 5' read Protein similarity
  BG719127 cDNA clone IMAGE:4831142 testis, cell line 5' read Protein similarity
  BG723724 cDNA clone IMAGE:4829577 testis, cell line 5' read Protein similarity
  BI819332 cDNA clone IMAGE:5178837 pooled brain, lung, testis 5' read
  BG721967 cDNA clone IMAGE:4830939 testis, cell line 5' read
  BI829564 cDNA clone IMAGE:5172334 medulla 5' read
  BI464641 cDNA clone IMAGE:5268830 testis, cell line 5' read Protein similarity