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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttacagatccagattgctatttgatgatttattgtgtgcttgtctttgattttgaatgggtttggtctctggatttgacatatacgatactactacgttttggaattgtgtaacctggttctgtagttttaaacaaaaatatgacgatggggttgatttgtgtttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCGGTCACGAGAAAGAGGAACTACAAGCCGAATTGGAG

Basic information

species Arabidopsis thaliana
transcript AT1G80230.1
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|152034202|gb|BP821952.2|BP821952
EST:     CATTCCCGCATATTC-TCCATATTCTCTCGTTTAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037667|gb|DR333422.1|DR333422
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037662|gb|DR333417.1|DR333417
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         S--ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037658|gb|DR333413.1|DR333413
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037651|gb|DR333406.1|DR333406
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         C-GATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037663|gb|DR333418.1|DR333418
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037669|gb|DR333424.1|DR333424
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037675|gb|DR333430.1|DR333430
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         SG-ATTACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGAT-ACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
EST: gi|86037647|gb|DR333402.1|DR333402
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         C-GATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037668|gb|DR333423.1|DR333423
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037644|gb|DR333399.1|DR333399
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTCCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037659|gb|DR333414.1|DR333414
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037674|gb|DR333429.1|DR333429
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037656|gb|DR333411.1|DR333411
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         -G-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037665|gb|DR333420.1|DR333420
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         -G-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037646|gb|DR333401.1|DR333401
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037648|gb|DR333403.1|DR333403
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037661|gb|DR333416.1|DR333416
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|125055766|gb|EL125813.1|EL125813
EST:     GTTTAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: GTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037654|gb|DR333409.1|DR333409
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037660|gb|DR333415.1|DR333415
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037664|gb|DR333419.1|DR333419
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037670|gb|DR333425.1|DR333425
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037652|gb|DR333407.1|DR333407
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         SG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037649|gb|DR333404.1|DR333404
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037672|gb|DR333427.1|DR333427
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATCACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGAT-ACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
EST: gi|86037655|gb|DR333410.1|DR333410
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         SG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037657|gb|DR333412.1|DR333412
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         SG-ATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037645|gb|DR333400.1|DR333400
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         S--ATTACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGAT-ACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
EST: gi|86037671|gb|DR333426.1|DR333426
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037666|gb|DR333421.1|DR333421
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         CG-ATACTGCTGTGAAGAATCGTGTTGAAGATGTGATGCCTATTGCAACCG
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCG
EST: gi|86037676|gb|DR333431.1|DR333431
EST:     CATTCCCGCATATTCCTCCATATTCTCTCGTCAAATCGGCTCCGCTGCAG                         SG-ATTACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
genomic: CATTCCCGCATATTCCTCCATATTCTCTCGTTTAATCGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGAT-ACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
EST: gi|124787736|gb|EH877415.1|EH877415
EST:     CGGCTCCGCTGCAG                         CGGATACTGTCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC
genomic: CGGCTCCGCTGCAGgtaatttaca ... tttgttccagCGGATACTG-CTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgtagttttaaacaaaaatatgacgatggggttgatttgtgtttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCGGTCACGAGAAAGAGGAACTACAAGCCGAATTGGAG
                                 ggttgat  putative branch site (score: 5)
                                             tttgttcc  putative PPT
      tagttttaaacaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttacagatccagattgctatttgatgatttattgtgtgcttgtctttgattttgaatgggtttggtctctggatttgacatatacgatactactacgttttggaattgtgtaacctggttctgtagttttaaacaaaaatatgacgatggggttgatttgtgtttgttccagCGGATACTGCTGTGAAGAAGCGTGTTGAAGATGTGATGCCTATTGCAACCGGTCACGAGAAAGAGGAACTACAAGCCGAATTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG