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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattgtattgttcattacagggaatgatgcaggatttgctgaaacaagtattatttgatattgctatttatgattaatgttttcctaatccttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG

Basic information

species Glycine max
transcript GLYMA02G45610.1
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|207780812|gb|GD754301.1|GD754301
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|208220404|gb|GE019836.1|GE019836
EST:     -TGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|4282637|gb|AI440556.1|AI440556
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGAT-GTGTTCTGC
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGC
EST: gi|193359948|gb|FK326720.1|FK326720
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|298181814|gb|HO025989.1|HO025989
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|208122469|gb|GD921803.1|GD921803
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTAGTTACTGCTTTACCT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGT-GTT-CTGCTTTACCT
EST: gi|208179591|gb|GD973594.1|GD973594
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|151404405|gb|EV274215.1|EV274215
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|58023254|gb|CX709995.1|CX709995
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|19271087|gb|BM887343.1|BM887343
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
EST: gi|207792263|gb|GD764169.1|GD764169
EST:     TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAG                         GCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT
genomic: TTGTTCGTTGGGAACAGTGCAAACAGTTGCTGCAATCTGGAAAACATAAGgtacacaagc ... cttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtattatttgatattgctatttatgattaatgttttcctaatccttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG
                                     tcctaat  putative branch site (score: 2)
                                  ttttcctaatcctt  CT-rich tract
     ttatttgatattgcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattgtattgttcattacagggaatgatgcaggatttgctgaaacaagtattatttgatattgctatttatgattaatgttttcctaatccttatcgtagGCACAAGGGCTGCGTCGGTGCATTGAAGAGATTGTGTTCTGCTTTACCTATCCCAGGCTAGATATGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - tgatgca
- - - - - - - - - - - - - - - - - - tgctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctatt