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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtggatcatttgctgaagattgtcgtttatctgatcaacgagtcactaattccgcccttgttgtatttgtatcaaattttcattttcattctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTTCTTTCTTCCATCAGATCATAAAAGGTTCCATTGTGCAG

Basic information

species Glycine max
transcript GLYMA04G07300.1
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|151394687|gb|EV264558.1|EV264558
EST:     CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAG                         GAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
genomic: CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAGgtattataaa ... ctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
EST: gi|298174857|gb|HO014774.1|HO014774
EST:     CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAG                         GAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
genomic: CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAGgtattataaa ... ctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
EST: gi|208306168|gb|GE105829.1|GE105829
EST:     CTATGATGTTGCTCCCAAGACTGCAGAAAACCTTCGTGCATTATGTACAG                         GAGAAAAAGGCATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
genomic: CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAGgtattataaa ... ctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
EST: gi|192310933|gb|FG998909.1|FG998909
EST:     CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAG                         GAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT
genomic: CTATGATGTTGCTCCCAAGACTGCAGAAAACTTTCGTGCATTATGTACAGgtattataaa ... ctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaattccgcccttgttgtatttgtatcaaattttcattttcattctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTTCTTTCTTCCATCAGATCATAAAAGGTTCCATTGTGCAG
 cactaat  putative branch site (score: 2)
                               ttttcattttcattct  putative PPT
                  tatttgtatcaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggatcatttgctgaagattgtcgtttatctgatcaacgagtcactaattccgcccttgttgtatttgtatcaaattttcattttcattctgtattcagGAGAAAAAGGTATCAGTCCAAATACTGGAAAATCACTGCACTACAAGGGTTCTTTCTTCCATCAGATCATAAAAGGTTCCATTGTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - tgctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - tccgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgta