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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatatatttgcagctatatttttgtttggttctcttgtttcccacacgaacatgagtgaaaatatttgtgaaaaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTATTGCAGCTGGCTTGATTCGGCATTGTGATCGTATTCAAATACTATTTGT

Basic information

species Arabidopsis thaliana
transcript AT4G34350.1
intron # 9
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|125272974|gb|EL287059.1|EL287059
EST:     A-GGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAA
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAA
EST: gi|125248622|gb|EL262707.1|EL262707
EST:     ACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
genomic: ACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
EST: gi|164192324|gb|ES015716.1|ES015716
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCG
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCG
EST: gi|125091739|gb|EL149562.1|EL149562
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTT
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTT
EST: gi|125030811|gb|EL103080.1|EL103080
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
EST: gi|86084844|gb|DR380603.1|DR380603
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
EST: gi|86078647|gb|DR374404.1|DR374404
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
EST: gi|125297888|gb|EL311973.1|EL311973
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACG
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACG
EST: gi|86036637|gb|DR332390.1|DR332390
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTA
EST: gi|124994570|gb|EL066839.1|EL066839
EST:     AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAG                         GTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACG
genomic: AGGGACCAATAACAATCGGTGTGACATCAGGTGCATCAACCCCGGATAAGgtatatatat ... aaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttctcttgtttcccacacgaacatgagtgaaaatatttgtgaaaaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTATTGCAGCTGGCTTGATTCGGCATTGTGATCGTATTCAAATACTATTTGT
                             tgaaaatatttgtgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatatatatttgcagctatatttttgtttggttctcttgtttcccacacgaacatgagtgaaaatatttgtgaaaaaattacagGTCGTGGAAGATGCTTTGGTGAAGGTGTTCGACATTAAACGTGAAGAGTTATTGCAGCTGGCTTGATTCGGCATTGTGATCGTATTCAAATACTATTTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG