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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatttcagttcgatgagaatggttgaagaagtaatcgcacataggttttaactttccctagcattcacatcttaaaaactcaatttttggtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG

Basic information

species Arabidopsis thaliana
transcript AT1G76200.1
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|124913259|gb|EH987133.1|EH987133
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGGATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGGATG
EST: gi|86053204|gb|DR348961.1|DR348961
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
EST: gi|163989613|gb|EL982834.1|EL982834
EST:     CCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: CCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
EST: gi|124718573|gb|EH809975.1|EH809975
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGGAT
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGGAT
EST: gi|125306887|gb|EL320972.1|EL320972
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGG
EST: gi|164224517|gb|EL987435.1|EL987435
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTA
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTA
EST: gi|86053200|gb|DR348957.1|DR348957
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAG
EST: gi|86077411|gb|DR373168.1|DR373168
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
EST: gi|86053203|gb|DR348960.1|DR348960
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCMGTWATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
EST: gi|164170313|gb|ES040058.1|ES040058
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGGATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATGGGATG
EST: gi|124983267|gb|EL056011.1|EL056011
EST:     GTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: GTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
EST: gi|86053201|gb|DR348958.1|DR348958
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
EST: gi|116480564|gb|EG523156.1|EG523156
EST:     CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTG                         GTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
genomic: CCCAAGACTTGGCACACCGTCACCGGAAAAGGCTTGTGCGCCGTTATGTGgtacatttct ... gtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttaactttccctagcattcacatcttaaaaactcaatttttggtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG
 ttttaac  putative branch site (score: 2)
                                              tattttc  putative PPT
                           ttaaaaactcaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caatttcagttcgatgagaatggttgaagaagtaatcgcacataggttttaactttccctagcattcacatcttaaaaactcaatttttggtattttcagGTTCTGGATTCTGTACAGGGCAAAGCAAGATGGTCCTGTAGTTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - -gaagaag
- - - - - - - - - - - - - - - - - - cgcacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaac