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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctcctttagtgatctgtttgtcaatccctgaagtttgatagaattagttctagatatgatatttgagaagcttgttttgatttggttttaattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGGCAACAGGCACCGGTTTTGTCATATCCTTGGCTGCTGATGATTTTTCTCG

Basic information

species Glycine max
transcript GLYMA02G06180.1
intron # 3
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|208295526|gb|GE092699.1|GE092699
EST:     GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCAT                         CAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
genomic: GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCATgtaagttata ... aattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
EST: gi|208310271|gb|GE103755.1|GE103755
EST:     GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCAT                         CAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
genomic: GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCATgtaagttata ... aattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
EST: gi|193684975|gb|FK626499.1|FK626499
EST:     GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCAT                         ---AGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAGGGATAAGAAGGG
genomic: GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCATgtaagttata ... aattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
EST: gi|192329295|gb|FK020214.1|FK020214
EST:     AGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGGTCTGGTTCCAT                         CAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
genomic: AGGAACAAAGAAACTTCTACATATCTATTGTACTTTGG-TCTGGTTCCATgtaagttata ... aattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
EST: gi|151394230|gb|EV264101.1|EV264101
EST:     GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCAT                         CAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG
genomic: GAGGAACAAAGAAACTTCTACATATCTATTGTACTTTGGTCTGGTTCCATgtaagttata ... aattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttctagatatgatatttgagaagcttgttttgatttggttttaattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGGCAACAGGCACCGGTTTTGTCATATCCTTGGCTGCTGATGATTTTTCTCG
                                         ttttaat  putative branch site (score: 3)
      tagatatgatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctcctttagtgatctgtttgtcaatccctgaagtttgatagaattagttctagatatgatatttgagaagcttgttttgatttggttttaattgtacagCAGAGAATGACAGTAATAAGTTGTTATTAGCTGCCAAAAGGATAAGAAGGGCAACAGGCACCGGTTTTGTCATATCCTTGGCTGCTGATGATTTTTCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
cctcctt
- - - - - - - -tgtttgt
- - - - - - - - - - - caatccc