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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcttccctctatctctcaaaactcttattgatcttacgattcagtaagctggttccataagactagttaagtgaccaaaactgttccataaaatcttatagGTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCATTGAGTGAAGAACCAAAAGACCAATG

Basic information

species Arabidopsis thaliana
transcript AT3G60370.1
intron # 1
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|86070975|gb|DR366732.1|DR366732
EST:     GGTGACGATTCTATCAACTCCTCCTCTCTCTCCAAGACTTACATTTCTCT                         GTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCAT
genomic: GGTGACGATTCTATCAA---CTCCTCTCTCTCCAAGACTTACATTTCTCTgtgagttctt ... aatcttatagGTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCAT
EST: gi|125300694|gb|EL314779.1|EL314779
EST:     AATGGTGACGATTCTATCAACTCCTCTCTCTCCAAGACTTACATTTCTCT                         GTGAAACAAAA
genomic: AATGGTGACGATTCTATCAACTCCTCTCTCTCCAAGACTTACATTTCTCTgtgagttctt ... aatcttatagGTGAAACAAAA
EST: gi|86070976|gb|DR366733.1|DR366733
EST:     GGTGACGATTCTATCAACTCCTCCTCTCTCTCCAAGACTTACATTTCTCT                         GTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCAT
genomic: GGTGACGATTCTATCAA---CTCCTCTCTCTCCAAGACTTACATTTCTCTgtgagttctt ... aatcttatagGTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCAT
EST: gi|19875360|gb|AU236191.1|AU236191
EST:     AATGGTGACGATTCTATCAACTCCTCTCTCTCCAAGACTTACATTTCTCT                         GTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCAT
genomic: AATGGTGACGATTCTATCAACTCCTCTCTCTCCAAGACTTACATTTCTCTgtgagttctt ... aatcttatagGTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctggttccataagactagttaagtgaccaaaactgttccataaaatcttatagGTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCATTGAGTGAAGAACCAAAAGACCAATG
                                         ataaaatcttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttcttccctctatctctcaaaactcttattgatcttacgattcagtaagctggttccataagactagttaagtgaccaaaactgttccataaaatcttatagGTGAAACAAAACTGTCATTATCTCGGAGCAATCGCTCGGTATGTTGTTCATTGAGTGAAGAACCAAAAGACCAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC