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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctcgaatactagcttttgtagtggtcattgggtaattttttttatataatagttggtccagctattttaaatttgaaatatttcaccatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTTACCATCAAAACTGGCATCGTTTCTGTTGCATTATTT

Basic information

species Glycine max
transcript GLYMA05G25780.1
intron # 10
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|208134024|gb|GD926973.1|GD926973
EST:     ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
genomic: ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
EST: gi|24136282|gb|BU926792.1|BU926792
EST:     ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
genomic: ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
EST: gi|193338485|gb|FK303412.1|FK303412
EST:     ATCGCTACATCTGGATAATTGGAATGATTTATGCCTACTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAA-TTGGAAGAGA
genomic: ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGA
EST: gi|208161302|gb|GD963476.1|GD963476
EST:     ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
genomic: ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
EST: gi|192300083|gb|FG991873.1|FG991873
EST:     CTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
genomic: CTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
EST: gi|192332805|gb|FK026806.1|FK026806
EST:     ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
genomic: ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
EST: gi|193676073|gb|FK618281.1|FK618281
EST:     ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAAT                         GTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT
genomic: ATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcga ... accatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttatataatagttggtccagctattttaaatttgaaatatttcaccatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTTACCATCAAAACTGGCATCGTTTCTGTTGCATTATTT
                                         tttcacc  CT-rich tract
                       tattttaaatttgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatctcgaatactagcttttgtagtggtcattgggtaattttttttatataatagttggtccagctattttaaatttgaaatatttcaccatctcagGTTGAGAAATGGATGGAAAAATTGGAAGAGAGTGATACCAAGAGGAGAGTTACCATCAAAACTGGCATCGTTTCTGTTGCATTATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA