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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttttagtttctgaaatgaatcaatcttagatacgagcctcaaagatctaacctttatgctgataattttgtatgaatgtgtgtgtttgttgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTGATTCTGAATTGAAGCTGGTTGGTGAGTATGGTCTGCGTAACAAGCGTGA

Basic information

species Arabidopsis thaliana
transcript AT5G15200.2
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|47828732|gb|CK118416.1|CK118416
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|164215337|gb|ES072458.1|ES072458
EST:     GTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTAACGAAGAAGGAGCGTCT
genomic: GTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTA-CGA-GAAGGAGCGTCT
EST: gi|116469655|gb|EG512247.1|EG512247
EST:     GTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: GTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|125208337|gb|EL223291.1|EL223291
EST:     CTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGAC
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGAC
EST: gi|86084155|gb|DR379914.1|DR379914
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|163993132|gb|ES161581.1|ES161581
EST:     GCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: GCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|116438812|gb|EG481404.1|EG481404
EST:     AAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: AAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|164120779|gb|ES045119.1|ES045119
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGT
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGT
EST: gi|116434965|gb|EG477557.1|EG477557
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|124954667|gb|EL029745.1|EL029745
EST:     CGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCCTACGAGAAGGAGCGTCTTG
genomic: CGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|86061612|gb|DR357369.1|DR357369
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATG-AAATACCTTCAAGGGACCA
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCA
EST: gi|116423124|gb|EG465716.1|EG465716
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|116434967|gb|EG477559.1|EG477559
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|86061611|gb|DR357368.1|DR357368
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
EST: gi|163977426|gb|ES119784.1|ES119784
EST:     TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACT                         ATGGAAAGACCTCCAAGGGACCACGTCGTCCTTA
genomic: TTTGCAGTAAGGAGACGAAAATATGGTGCACGTTTGCTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTA
EST: gi|164149576|gb|EL998539.1|EL998539
EST:     CTACTACCGCAACT                         ATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG
genomic: CTACTACCGCAACTgtaagcttct ... tgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctaacctttatgctgataattttgtatgaatgtgtgtgtttgttgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTGATTCTGAATTGAAGCTGGTTGGTGAGTATGGTCTGCGTAACAAGCGTGA
                 ataattttgtatgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttagtttctgaaatgaatcaatcttagatacgagcctcaaagatctaacctttatgctgataattttgtatgaatgtgtgtgtttgttgttgaatagATGGAAAGACCTTCAAGGGACCACGTCGTCCTTACGAGAAGGAGCGTCTTGATTCTGAATTGAAGCTGGTTGGTGAGTATGGTCTGCGTAACAAGCGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
gttttag
- - - - - ctgaaat
- - - - - - - - -gaatcaa
- - - - - - - - - - - - - - - - - - -cctcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt