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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagggtttttctaacacctgaagcttcttgtttcatattattactttaatttttcattttccgtgttttcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAGTAGCGACTGCAATATCCACTTGGTTGGTGGACAAAGCAGGTCGTCGGCT

Basic information

species Arabidopsis thaliana
transcript AT1G75220.1
intron # 11
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|125060362|gb|EL129039.1|EL129039
EST:     TCCTATTCTATTCCAGTACAATATTTGAATCTGCAG                         GAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAG
genomic: TCCTATTCTATTCCAGTACAATATTTGAATCTGCAGgtagggtttt ... tcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAG
EST: gi|86059936|gb|DR355693.1|DR355693
EST:     TGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAG                         GAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAG
genomic: TGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAGgtagggtttt ... tcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAG
EST: gi|124892616|gb|EH971518.1|EH971518
EST:     TGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAG                         GAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGG
genomic: TGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAGgtagggtttt ... tcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGG
EST: gi|124957803|gb|EL032598.1|EL032598
EST:     TGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAG                         GAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATT
genomic: TGGAATTAATGGTGTCCTATTCTATTCCAGTACAATATTTGAATCTGCAGgtagggtttt ... tcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcttgtttcatattattactttaatttttcattttccgtgttttcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAGTAGCGACTGCAATATCCACTTGGTTGGTGGACAAAGCAGGTCGTCGGCT
                    ctttaat  putative branch site (score: 4)
                          tttttcattttccgtg  CT-rich tract
     tgtttcatattattac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagggtttttctaacacctgaagcttcttgtttcatattattactttaatttttcattttccgtgttttcatgtttagGAGTTACATCGAGTAACGCAGCAACATTTGGGGTCGGGGCTATTCAGGTAGTAGCGACTGCAATATCCACTTGGTTGGTGGACAAAGCAGGTCGTCGGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA