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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAGGTGTTTCCACTGCTGTTTCCCATGGTCTTTGGCTCAACATCCCTGACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataattatcatcataacatgtttatgtgtttttttgtcaggatattcaaatgtcagtttttgctaaacgtttgatatgtcag

Basic information

species Arabidopsis thaliana
transcript AT5G15650.1
intron # 2
splice site 5'
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|124932814|gb|EL010038.1|EL010038
EST:     CCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
genomic: CCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
EST: gi|164054735|gb|ES209168.1|ES209168
EST:     CCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
genomic: CCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
EST: gi|124984056|gb|EL056746.1|EL056746
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCGTGACCATCCCAAAGGGAACACT
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACT
EST: gi|124772590|gb|EH862719.1|EH862719
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATAGTGGATGCTGTCATGACCATC
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTAT-GTGGATGCTGTCATGACCATC
EST: gi|86059347|gb|DR355104.1|DR355104
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
EST: gi|124926902|gb|EL004686.1|EL004686
EST:     GA-TACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
EST: gi|301501222|gb|HO206762.1|HO206762
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
EST: gi|11118334|gb|AB050560.1|AB050560
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGT
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGT
EST: gi|164185639|gb|ES174506.1|ES174506
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCC
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCC
EST: gi|47829311|gb|CK118995.1|CK118995
EST:     GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAG                         GTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG
genomic: GACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataa ... gatatgtcagGTATGTGGATGCTGTCATGACCATCCCAAAGGGAACACTTTTCCCAATGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAGGTGTTTCCACTGCTGTTTCCCATGGTCTTTGGCTCAACATCCCTGACTACGATGCCCCGACCCAACTCGTGAAGCCTAAGGAGAGGAACACCAGgtgacaataattatcatcataacatgtttatgtgtttttttgtcaggatattcaaatgtcagtttttgctaaacgtttgatatgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA