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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagagtaatcaatttattacactccaaattcataatcaagttctaatttttttagaattctaattttttatctaaaaaaattcaacctttttgattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG

Basic information

species Arabidopsis thaliana
transcript AT1G77120.1
intron # 2
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|116406708|gb|EG449300.1|EG449300
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTTTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|152034897|gb|BP839260.2|BP839260
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGAAAAACACCGTTGTT-CCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116438330|gb|EG480922.1|EG480922
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116416235|gb|EG458827.1|EG458827
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116439251|gb|EG481843.1|EG481843
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116406690|gb|EG449282.1|EG449282
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116406691|gb|EG449283.1|EG449283
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116406709|gb|EG449301.1|EG449301
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116406705|gb|EG449297.1|EG449297
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
EST: gi|116406711|gb|EG449303.1|EG449303
EST:     TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAG                         GGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
genomic: TTCTCTTCACTTCTCTCTGTCACACCGATGTTTACTTCTGGGAAGCTAAGgtagagtaat ... gattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttagaattctaattttttatctaaaaaaattcaacctttttgattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG
                                      cctttttg  CT-rich tract
        aattctaattttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagagtaatcaatttattacactccaaattcataatcaagttctaatttttttagaattctaattttttatctaaaaaaattcaacctttttgattccacagGGACAAACACCGTTGTTTCCACGTATCTTCGGCCATGAAGCTGGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG