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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgaaaatctgtgtttgagttgcttagttttggtgatctcaaagtgtttctcttatgccactctcacaaggttttgagtatgttgatttgtgttttgttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT

Basic information

species Arabidopsis thaliana
transcript AT1G75380.1
intron # 3
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|86040917|gb|DR336672.1|DR336672
EST:     TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGNCCAAATT
genomic: TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
EST: gi|86040905|gb|DR336660.1|DR336660
EST:     TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATG
genomic: TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATG
EST: gi|125198756|gb|EL213710.1|EL213710
EST:     AAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
genomic: AAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
EST: gi|86040903|gb|DR336658.1|DR336658
EST:     TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATTG
genomic: TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATTG
EST: gi|124929044|gb|EL006629.1|EL006629
EST:     TGTCTTG-AAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTG
genomic: TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTG
EST: gi|125311221|gb|EL325306.1|EL325306
EST:     ACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATTG
genomic: ACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATTG
EST: gi|125326099|gb|EL340179.1|EL340179
EST:     GTCTTGAAAATGGAAGAATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTG
genomic: GTCTTGAAAATGGAAG-ATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTG
EST: gi|47829045|gb|CK118729.1|CK118729
EST:     TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
genomic: TGTCTTGAAAATGGAAGATGGAACTGGTCTTCTCCTTCCGATTATCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
EST: gi|124961245|gb|EL035796.1|EL035796
EST:     AAGATGGAACTGGTCTTCTCCTTCCGATTATTCGTCT                         TGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
genomic: AAGATGGAACTGGTCTTCTCCTTCCGATTA-TCGTCTgtacgtgaaa ... gttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatgccactctcacaaggttttgagtatgttgatttgtgttttgttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT
                                         ttttgtt  CT-rich tract
                                         ttttgttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtgaaaatctgtgtttgagttgcttagttttggtgatctcaaagtgtttctcttatgccactctcacaaggttttgagtatgttgatttgtgttttgttattgcagTGGAGATGCCTAGTGTGTTACTTATGGCAGCAATGACCAATGTCCAAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG