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

Candidate UniGene cluster:UniGene Cluster Hs.10315
Description:solute carrier family 7 (cationic amino acid transporter, y+ system), member 6
Best-Of-UniGene (BOU) SequenceNM_003983
Genomic Coordiantes Displayed:Bases 487000 to 508000 of contig Hs16_10635_24
BOU Orientation Along Contig:RIGHT-TO-LEFT with respect to contig
Link to JPEG of genomic mappingHs.10315.jpeg
Best sense EST/protein match:NM_003983 matched ref|NP_003974.1| (NM_003983) solute carrier family 7 (cationic amino acid transporter, (E = 0.0)
Best antisense EST/protein match:No protein match with an e-value of less than 1e-10


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
  AA677673 cDNA clone IMAGE:460441 pool 3' read
  AI243889 cDNA clone IMAGE:1850771 pool 3' read 0.7 kb
  BG026213 cDNA clone IMAGE:4386562 osteosarcoma, cell line 5' read
  BG829347 cDNA clone IMAGE:4905665 rhabdomyosarcoma 5' read
  AA370594 cDNA clone ATCC:175055 prostate 5' read
  AA370408 cDNA clone ATCC:174893 prostate 5' read
  BF203739 cDNA clone IMAGE:4111250 rhabdomyosarcoma 5' read
  AA370407 cDNA clone ATCC:174893 prostate 3' read Polyadenylation signal
  AU138442 cDNA clone PLACE1008565 placenta 5' read
  AU141700 cDNA clone THYRO1001060 thyroid gland 5' read
  AU134493 cDNA clone OVARC1002077 ovary, tumor tissue 5' read
  BE891086 cDNA clone IMAGE:3917398 melanotic melanoma 5' read
  AU155454 cDNA clone OVARC1002077 ovary, tumor tissue 3' read Polyadenylation signal
  AU159197 cDNA clone THYRO1001060 thyroid gland 3' read Polyadenylation signal
  AW075879 cDNA clone IMAGE:2573170 myeloid cells, 18 pooled cml cases, bcr/abl rearrangement 3' read Polyadenylation signal
  AI241430 cDNA clone IMAGE:1850917 pool 3' read 0.6 kbPolyadenylation signal
  AI040366 cDNA clone IMAGE:1656457 pool 3' read 0.7 kbPolyadenylation signal

SENSE ESTs

  BG576480 cDNA clone IMAGE:4707080 mammary adenocarcinoma, cell line 5' read
  R51116 cDNA clone IMAGE:37618 brain 3' read 1.7 kbPolyadenylation signal
  AW054929 cDNA clone IMAGE:2510381 pancreas 3' read Polyadenylation signal
  AW897658 cDNA clone (no-name) nervous_normal
  T57884 cDNA clone IMAGE:71617 spleen 3' read 0.4 kbPolyadenylation signal
  R48943 cDNA clone IMAGE:36991 brain 3' read 1.0 kbPolyadenylation signal
  T57966 cDNA clone IMAGE:71617 spleen 5' read 0.4 kb
  BG676153 cDNA clone IMAGE:4747452 squamous cell carcinoma 5' read
  BG696574 cDNA clone IMAGE:4802887 skin 5' read
  BG675597 cDNA clone IMAGE:4747105 squamous cell carcinoma 5' read
  BG028913 cDNA clone IMAGE:4387780 osteosarcoma, cell line 5' read
  BG025935 cDNA clone IMAGE:4386909 osteosarcoma, cell line 5' read
  R34405 cDNA clone IMAGE:36991 brain 5' read 1.0 kb
  BE879422 cDNA clone IMAGE:3887420 large cell carcinoma, undifferentiated 5' read
  R35547 cDNA clone IMAGE:37618 brain 5' read 1.7 kb
  BG898066 cDNA clone (no-name) cartilage
  BI090745 cDNA clone IMAGE:4997193 placenta 5' read
  BF980043 cDNA clone IMAGE:4374342 testis, cell line 3' read
  AL600165 cDNA clone DKFZp313H2232 5' read
  BG230586 cDNA clone IMAGE:4143552 lymphocyte 3' read Polyadenylation signal
  AA346469 cDNA clone ATCC:147900 heart 5' read
  BG287410 cDNA clone IMAGE:4499759 transitional cell papilloma, cell line 5' read
  BM050379 cDNA clone IMAGE:5423261 normal pigmented retinal epithelium 5' read
  BI160336 cDNA clone IMAGE:5018676 epithelioid carcinoma cell line 5' read
  BM042873 cDNA clone IMAGE:5557063 melanotic melanoma, cell line 3' read
  BI092601 cDNA clone IMAGE:4999722 placenta 5' read Protein similarity
  BI909342 cDNA clone IMAGE:5214340 leukocyte 5' read Protein similarity
  AU098609 cDNA clone COL04287