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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcacagttctaactcttgtgctggaaaaagtgttgatctttttccctttttttatcattgacttcttatgtacttgtttgtcttgtttctatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT

Basic information

species Arabidopsis thaliana
transcript AT4G26710.2
intron # 1
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|124970285|gb|EL044125.1|EL044125
EST:     AACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGA
genomic: AACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGA
EST: gi|86053715|gb|DR349472.1|DR349472
EST:     GCTTCGATATGCACTAGAATCTGCTTCAACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
genomic: GCTTCGATATGCACTAGAATCTGCTTCAACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
EST: gi|125230437|gb|EL244522.1|EL244522
EST:     AACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
genomic: AACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
EST: gi|86083717|gb|DR379476.1|DR379476
EST:     CTYCGATATSCACTAGAATCTGCTTCAACCAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
genomic: CTTCGATATGCACTAGAATCTGCTTCAA-CAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
EST: gi|125197881|gb|EL212835.1|EL212835
EST:     CTTCAACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTG
genomic: CTTCAACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTG
EST: gi|125064552|gb|EL132133.1|EL132133
EST:     AATCTGCTTCAACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGATGTG
genomic: AATCTGCTTCAACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGATGTG
EST: gi|86053714|gb|DR349471.1|DR349471
EST:     GCTTCGATATGCACTAGAATCTGCTTCAACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
genomic: GCTTCGATATGCACTAGAATCTGCTTCAACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
EST: gi|86079112|gb|DR374869.1|DR374869
EST:     GCTTCGATATGCACTAGAATCTGCTTCAACAAAGGCCCCTCCACCAATCT                         GTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
genomic: GCTTCGATATGCACTAGAATCTGCTTCAACAAAGGCCCCTCCACCAATCTgtatgtcaat ... tatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttttttatcattgacttcttatgtacttgtttgtcttgtttctatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT
           cattgac  putative branch site (score: 3)
                                tttgtcttgtttct  putative PPT
     ttttatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcacagttctaactcttgtgctggaaaaagtgttgatctttttccctttttttatcattgacttcttatgtacttgtttgtcttgtttctatgaaacagGTTACATCTTACATTGGTCATCACCGCAACTGTCTGCTGTTGGATGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - gaaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt