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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catcttagtctctctttgaggaaaaatgatgaataaggacacagaggaaactgtgaattcgtactctgtcttttgtctctaatgaaaactgaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCAAAGAAGACAGTCGCGGATGTGGAGAAGCAGTTTCCCACTGAAGATGCCT

Basic information

species Arabidopsis thaliana
transcript AT2G30410.2
intron # 4
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|47831397|gb|CK121081.1|CK121081
EST:     ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
genomic: ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
EST: gi|164136511|gb|ES055733.1|ES055733
EST:     ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCC
genomic: ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCC
EST: gi|164190655|gb|ES031732.1|ES031732
EST:     CGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
genomic: CGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
EST: gi|124727131|gb|EH818533.1|EH818533
EST:     TTTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCC
genomic: -TTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCC
EST: gi|124925894|gb|EL003818.1|EL003818
EST:     ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGG
genomic: ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGG
EST: gi|124966798|gb|EL040878.1|EL040878
EST:     TTGCCACAAACGTCTCGAGTCTGCATTAGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGA
genomic: TTGCCACAAACGTCTCGAGTCTGCATT-GGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGA
EST: gi|164104260|gb|ES134447.1|ES134447
EST:     GTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
genomic: GTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
EST: gi|86074489|gb|DR370246.1|DR370246
EST:     ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
genomic: ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
EST: gi|125052468|gb|EL124244.1|EL124244
EST:     AAGTCCACTTTG                         GCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
genomic: AAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCA
EST: gi|125147133|gb|EL181505.1|EL181505
EST:     ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG                         GCGGAATTGGA
genomic: ATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTGgtaaactaca ... gaatttgcagGCGGAATTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaactgtgaattcgtactctgtcttttgtctctaatgaaaactgaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCAAAGAAGACAGTCGCGGATGTGGAGAAGCAGTTTCCCACTGAAGATGCCT
                               ctctaat  putative branch site (score: 3)
                                  taatgaaaa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catcttagtctctctttgaggaaaaatgatgaataaggacacagaggaaactgtgaattcgtactctgtcttttgtctctaatgaaaactgaatttgcagGCGGAATTGGAAGAGACGGATGAGAAGGAAGGTCCAGAGATCGAAGATGCAAAGAAGACAGTCGCGGATGTGGAGAAGCAGTTTCCCACTGAAGATGCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG