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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGAGAGGCCCAATGAGACTCTGGTGGAAGCTTTCAAAAGTATGCATATACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcctacggaaagagttgtaaaaaatattgttaaatagtgggtagctatttgaagatgttaaattacttctactaaactgatctctttttttgc...

Basic information

species Oryza sativa
transcript LOC_Os02g11840.2
intron # 14
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88965746|gb|CI006623.1|CI006623
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|87021442|gb|CI274049.1|CI274049
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|29644063|gb|CB649070.1|CB649070
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|33800696|gb|CF326218.1|CF326218
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|87021165|gb|CI271972.1|CI271972
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|86480883|gb|CI123516.1|CI123516
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|86481559|gb|CI124192.1|CI124192
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|86478917|gb|CI121550.1|CI121550
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|86521390|gb|CI161596.1|CI161596
EST:     TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
EST: gi|2797452|gb|AA750746.1|AA750746
EST:     TACATCTAGAGGAGGTGCTGCTAGATGAAAATGGAGATGACACTCACGAG                         GCTATTGAGGAAAATG
genomic: TACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATG
EST: gi|86477288|gb|CI119921.1|CI119921
EST:     GGAGATGACACTCACGAG                         GCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT
genomic: GGAGATGACACTCACGAGgtatcactcc ... gttccatcagGCTATTGAGGAAAATGGAGTAGAAGAGAGCCAAGAAGATGCTGTTGAGGTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTGAGAGGCCCAATGAGACTCTGGTGGAAGCTTTCAAAAGTATGCATATACATCTAGAGGAGGTGCTGCCAGATGAAAATGGAGATGACACTCACGAGgtatcactcctacggaaagagttgtaaaaaatattgttaaatagtgggtagctatttgaagatgttaaattacttctactaaactgatctctttttttgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat