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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGTTTTGGCGTCAACAGCTAATGAATTGAGGAGAGACAGATACGGCACTCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcacttctcttcttttgtttatctgcaaatcaaatctttttgaacgtggataattggatttatggatacagttacctacagaggaacatgacta...

Basic information

species Arabidopsis thaliana
transcript AT1G05060.1
intron # 2
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|125003003|gb|EL075272.1|EL075272
EST:     GTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATA                         TTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTTTGGTTCAGCCACTT
genomic: GTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcac ... gtttctgcagTTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTTTGGTTCAGCCACTT
EST: gi|116475903|gb|EG518495.1|EG518495
EST:     TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATA                         TTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTTTGGTTCAGCCACTT
genomic: TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcac ... gtttctgcagTTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTTTGGTTCAGCCACTT
EST: gi|124862793|gb|EH947230.1|EH947230
EST:     TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATA                         TTGGAAAAGCATTTGCAG
genomic: TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcac ... gtttctgcagTTGGAAAAGCATTTGCAG
EST: gi|125303034|gb|EL317119.1|EL317119
EST:     TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATA                         TTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTT
genomic: TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcac ... gtttctgcagTTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTT
EST: gi|86080231|gb|DR375988.1|DR375988
EST:     TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATA                         TTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTTTGGTTCAGCCACTT
genomic: TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcac ... gtttctgcagTTGGAAAAGCATTTGCAGCCGCTACTATTATCATCTTTGGTTCAGCCACTT
EST: gi|86046596|gb|DR342351.1|DR342351
EST:     TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATA                         TTGGAAAAAGCATTTGC
genomic: TCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcac ... gtttctgcagTTGGAAAA-GCATTTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGGTTTTGGCGTCAACAGCTAATGAATTGAGGAGAGACAGATACGGCACTCCTGTAAATCCTGAGAAATTGAAAGCTGCTGGTGAAGGGCTTCAACATAgtatgatcacttctcttcttttgtttatctgcaaatcaaatctttttgaacgtggataattggatttatggatacagttacctacagaggaacatgacta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggaaca