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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtacttaaaactttgacactctgttttaacttctttactagttaggaactctgatttagactttcatttggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTTTCACATAAGAAAGAAGAGGAAGCTAAAAAATCTTCTAGTGAAGGCTTAA

Basic information

species Arabidopsis thaliana
transcript AT4G19610.1
intron # 3
splice site 3'
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|116484810|gb|EG527402.1|EG527402
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484814|gb|EG527406.1|EG527406
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484670|gb|EG527262.1|EG527262
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484673|gb|EG527265.1|EG527265
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484811|gb|EG527403.1|EG527403
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484799|gb|EG527391.1|EG527391
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484815|gb|EG527407.1|EG527407
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484674|gb|EG527266.1|EG527266
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484806|gb|EG527398.1|EG527398
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
EST: gi|116484669|gb|EG527261.1|EG527261
EST:     TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAG                         ATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT
genomic: TTAAGTACTTCAACAATACTTATCTTGGTACTTCTCTTATCATTGTTGAGgtttgtactt ... tggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaacttctttactagttaggaactctgatttagactttcatttggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTTTCACATAAGAAAGAAGAGGAAGCTAAAAAATCTTCTAGTGAAGGCTTAA
                                     ctttcattt  CT-rich tract
                                      tttcattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtacttaaaactttgacactctgttttaacttctttactagttaggaactctgatttagactttcatttggcttatagATTGCTCACAAAGTTGGAGATGAGAATGCTCCTCGTCCGTGGAGTCGTCTTTCACATAAGAAAGAAGAGGAAGCTAAAAAATCTTCTAGTGAAGGCTTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA