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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATCCGTAAGAAACCCGCTAACGCCGCTGCCAAGCGCGACGAGAAAACTGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttcttctttcctttccctaatttctagacctatcttagctcctgttgatgttatccggtttgatctagggctctctagtataatatttacttgat...

Basic information

species Arabidopsis thaliana
transcript AT2G42680.1
intron # 1
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|125280523|gb|EL294608.1|EL294608
EST:     TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCCTGGAACCAACAAGGCGGCATACAAGCGGCAC
genomic: TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGC-TGGAACCAACAAGGCGGCAT-CAAGCGGCAC
EST: gi|86081161|gb|DR376918.1|DR376918
EST:     TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
genomic: TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
EST: gi|47829297|gb|CK118981.1|CK118981
EST:     TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
genomic: TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
EST: gi|125261592|gb|EL275677.1|EL275677
EST:     TGTCAA-GCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATACAAGCGGCAC
genomic: TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCAT-CAAGCGGCAC
EST: gi|125286373|gb|EL300458.1|EL300458
EST:     TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCCTGGAACCAACAAGGCGGCATACAAGCGGC
genomic: TGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGC-TGGAACCAACAAGGCGGCAT-CAAGCGGC
EST: gi|164092081|gb|ES087034.1|ES087034
EST:     GCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
genomic: GCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
EST: gi|116455455|gb|EG498047.1|EG498047
EST:     CGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
genomic: CGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
EST: gi|164195078|gb|ES040546.1|ES040546
EST:     GAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
genomic: GAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
EST: gi|116455456|gb|EG498048.1|EG498048
EST:     CGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAAT                         TCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA
genomic: CGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttctt ... ttgggtttagTCAATGCTGGAACCAACAAGGCGGCATCAAGCGGCACATCTCTGAACACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGATCCGTAAGAAACCCGCTAACGCCGCTGCCAAGCGCGACGAGAAAACTGTCAACGCCGCTCGTCGATCCGGCGCCGATATCGAGACCGTCAGAAAATgttcgttcttctttcctttccctaatttctagacctatcttagctcctgttgatgttatccggtttgatctagggctctctagtataatatttacttgat

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