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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttatgattaatttccgttcagaaaggtttcggcaggaccattgttgtagattttttgttgacgtctctgttttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGTGGTGCTTTTTCATGGGAAATTGCTCCAGTTGAAGTCTCTGGTGGAAGGG

Basic information

species Glycine max
transcript GLYMA02G47860.1
intron # 6
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|151397198|gb|EV267071.1|EV267071
EST:     TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAG                         GATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
genomic: TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAGgtattttatg ... ttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
EST: gi|207834341|gb|GD806242.1|GD806242
EST:     TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAG                         GATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
genomic: TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAGgtattttatg ... ttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
EST: gi|193400135|gb|FK367496.1|FK367496
EST:     TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAG                         GATAACTATGCAGTTCAGAGTTTTGAACGCGGAA
genomic: TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAGgtattttatg ... ttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAA
EST: gi|193656394|gb|FK602866.1|FK602866
EST:     TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAG                         GATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAAGAAAG
genomic: TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAGgtattttatg ... ttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAA-GAAAG
EST: gi|208337788|gb|GE134302.1|GE134302
EST:     TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAG                         GATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
genomic: TCTGTGCTGAGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAGgtattttatg ... ttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
EST: gi|208074647|gb|GD871266.1|GD871266
EST:     AGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAG                         GATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT
genomic: AGCTATGTGCAGATAACCATGCATTAACAAGAGATGACCAGgtattttatg ... ttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcggcaggaccattgttgtagattttttgttgacgtctctgttttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGTGGTGCTTTTTCATGGGAAATTGCTCCAGTTGAAGTCTCTGGTGGAAGGG
                             tgttgac  putative branch site (score: 3)
                                   cgtctctgttttcccc  CT-rich tract
                    tagatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattttatgattaatttccgttcagaaaggtttcggcaggaccattgttgtagattttttgttgacgtctctgttttcccctcagGATAACTATGCAGTTCAGAGTTTTGAACGCGGAATTGCTGCCCAAGAAAGTGGTGCTTTTTCATGGGAAATTGCTCCAGTTGAAGTCTCTGGTGGAAGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG