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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGCCGGCTGCAGAATGCGGTTTCCGATTGCCTTGATCTGCTTGACTTTTCTTCAGAGGAGCTCACTTGGTCTGCTTCTGCTTCTGAGAATCCAAAAGgtaccttaaaggcttaaactctagtttacaacatatatcaatctctctagttttatcacatccttatagagttggaaactttgaatgcataaaccttttt...

Basic information

species Arabidopsis thaliana
transcript AT4G33220.1
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|124923436|gb|EL001631.1|EL001631
EST:     TGCTTCTGAGAATCCAAAAG                         GTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
genomic: TGCTTCTGAGAATCCAAAAGgtaccttaaa ... caccaaccagGTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
EST: gi|116468560|gb|EG511152.1|EG511152
EST:     TTCTTCAGAGGAGCTCACTTGGTCTGCTTCTGCTTCTGAGAATCCAAAAG                         GTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
genomic: TTCTTCAGAGGAGCTCACTTGGTCTGCTTCTGCTTCTGAGAATCCAAAAGgtaccttaaa ... caccaaccagGTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
EST: gi|124719836|gb|EH811238.1|EH811238
EST:     CTGCTTCTGAGAATCCAAAAG                         GTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
genomic: CTGCTTCTGAGAATCCAAAAGgtaccttaaa ... caccaaccagGTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
EST: gi|125043517|gb|EL115786.1|EL115786
EST:     TTCTTCAGAGGAGCTCACTTGGTCTGCTTCTGCTTCTGAGAATCCAAAAG                         GTAAGGGCAAC
genomic: TTCTTCAGAGGAGCTCACTTGGTCTGCTTCTGCTTCTGAGAATCCAAAAGgtaccttaaa ... caccaaccagGTAAGGGCAAC
EST: gi|164096683|gb|ES033370.1|ES033370
EST:     GTCTGCTTCTGCTTCTGAGAATCCAAAAG                         GTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA
genomic: GTCTGCTTCTGCTTCTGAGAATCCAAAAGgtaccttaaa ... caccaaccagGTAAGGGCAACGGAACAGGGGACGTTGGATCGGACACAAGGACATGGTTAA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATCGCCGGCTGCAGAATGCGGTTTCCGATTGCCTTGATCTGCTTGACTTTTCTTCAGAGGAGCTCACTTGGTCTGCTTCTGCTTCTGAGAATCCAAAAGgtaccttaaaggcttaaactctagtttacaacatatatcaatctctctagttttatcacatccttatagagttggaaactttgaatgcataaaccttttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctag