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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattcctatactacatattatccactttgtgtgatgcttgaattctatattatgttttttttgttattttaattaatgtcttgatattgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGATAGTTTTGATGCAATGGGCCTTCAAGAAAATCTTCTGAGAGGCATATAT

Basic information

species Glycine max
transcript GLYMA13G42360.1
intron # 2
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|5606855|gb|AI900953.1|AI900953
EST:     GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATT                         GCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
genomic: GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
EST: gi|192305404|gb|FG998272.1|FG998272
EST:     GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATT                         GCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
genomic: GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
EST: gi|193452944|gb|FK420750.1|FK420750
EST:     AAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAAATT                         GCTTTCCGCCGATGG
genomic: AAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAA-TTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGG
EST: gi|4397059|gb|AI496056.1|AI496056
EST:     GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATT                         GCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGAC
genomic: GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGAC
EST: gi|12773183|gb|BG238110.1|BG238110
EST:     GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATT                         GCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
genomic: GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
EST: gi|254347906|gb|GR854155.1|GR854155
EST:     GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATT                         GCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
genomic: GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
EST: gi|209726515|gb|BW658082.1|BW658082
EST:     GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATT                         GCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA
genomic: GAAGGATCGCAGTTTGATGCTCGGCAATATGATTCTAAGATGAATGAATTgtaaattcct ... tgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctatattatgttttttttgttattttaattaatgtcttgatattgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGATAGTTTTGATGCAATGGGCCTTCAAGAAAATCTTCTGAGAGGCATATAT
     tattatgttttttttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattcctatactacatattatccactttgtgtgatgcttgaattctatattatgttttttttgttattttaattaatgtcttgatattgaaaaacagGCTTTCCGCCGATGGACAAGAATTTTTCACTTCATATGACGAAGTCTATGATAGTTTTGATGCAATGGGCCTTCAAGAAAATCTTCTGAGAGGCATATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG