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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaactctctctttctctagtaatcataataaactaattaatcaattaacaagacgtaaccgtatttttttgtttttggttaatttgaagTGGTGGTGAATGGGGTAAACCGGGGAAGACTTGCTTGGGTGAGACGGTACCAGTGCAAGGACCAAGTTACCCCGGACGACCTAATGAAGGTGAAGCTATA

Basic information

species Arabidopsis thaliana
transcript AT1G78710.1
intron # 4
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|116417659|gb|EG460251.1|EG460251
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGAA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGAA
EST: gi|116417560|gb|EG460152.1|EG460152
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417794|gb|EG460386.1|EG460386
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGAA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGAA
EST: gi|116417759|gb|EG460351.1|EG460351
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417604|gb|EG460196.1|EG460196
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417770|gb|EG460362.1|EG460362
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGAA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGAA
EST: gi|116417783|gb|EG460375.1|EG460375
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417671|gb|EG460263.1|EG460263
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417626|gb|EG460218.1|EG460218
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417737|gb|EG460329.1|EG460329
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA
EST: gi|116417726|gb|EG460318.1|EG460318
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGAA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGAA
EST: gi|116417537|gb|EG460129.1|EG460129
EST:     CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAA                         TGGTGGTGAATGGGGTAAACCGGGGA
genomic: CCTTCAAAAACTAGGGTTTTCTATCAAGGCGTCTCTCCCGTTCACTTAAAgttaactctc ... taatttgaagTGGTGGTGAATGGGGTAAACCGGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattaatcaattaacaagacgtaaccgtatttttttgtttttggttaatttgaagTGGTGGTGAATGGGGTAAACCGGGGAAGACTTGCTTGGGTGAGACGGTACCAGTGCAAGGACCAAGTTACCCCGGACGACCTAATGAAGGTGAAGCTATA
                           tatttttttgtttttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaactctctctttctctagtaatcataataaactaattaatcaattaacaagacgtaaccgtatttttttgtttttggttaatttgaagTGGTGGTGAATGGGGTAAACCGGGGAAGACTTGCTTGGGTGAGACGGTACCAGTGCAAGGACCAAGTTACCCCGGACGACCTAATGAAGGTGAAGCTATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC