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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggcatagctcaaacgatatagtttaacactgatacttttagttagatgggcactcaagtcttgaccatcaattcactttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAATGACGATG

Basic information

species Glycine max
transcript GLYMA16G27570.2
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|298188987|gb|HO035712.1|HO035712
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATG
genomic: C---A---TCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATG
EST: gi|209703751|gb|BW665024.1|BW665024
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
genomic: C---A---TCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
EST: gi|192327386|gb|FK018148.1|FK018148
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
genomic: C---A---TCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
EST: gi|192323243|gb|FK017409.1|FK017409
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
genomic: C---A---TCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
EST: gi|192295643|gb|FG990497.1|FG990497
EST:     CATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
genomic: CATCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
EST: gi|192297482|gb|FG989517.1|FG989517
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGGGAG
genomic: C---A---TCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAG
EST: gi|213614007|gb|DB960972.1|DB960972
EST:     CTGCAGCATCTGATATGGACTTTGGTGACATTGATTTTTCT                         AAGTTGGGCATGCGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
genomic: C---A---TCTGATATGGACTTTGGTGACATTGATTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAAT
EST: gi|193330348|gb|FK294912.1|FK294912
EST:     CATTGATTTTTTCT                         AAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAA
genomic: CATTGA-TTTTTCTgtaagtggca ... ttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttttagttagatgggcactcaagtcttgaccatcaattcactttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAATGACGATG
                          tcttgac  putative branch site (score: 3)
                                       ttcactttct  putative PPT
     ttagtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtggcatagctcaaacgatatagtttaacactgatacttttagttagatgggcactcaagtcttgaccatcaattcactttctatgcagAAGTTGGGCATGGGAGGGGGTGAAGGATTGGATTCTGATGCTGCAGGCAATGACGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG