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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taattgtctgaaaaaggctcagtttcagatacaaattgcacaaattttaccatcttatttcctgtggctggtatgatatggtaaagattgtttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGCAATCTTGAAACAACTTTGGCACCATCCAGATGCAATATTGTGCTGTTCT

Basic information

species Glycine max
transcript GLYMA05G30000.1
intron # 15
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|193673468|gb|FK617693.1|FK617693
EST:     GGTCCACCAGAGGCNCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAG                         GCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
genomic: GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAGgtttgtattc ... tttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
EST: gi|10237301|gb|BE806189.1|BE806189
EST:     GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAG                         GCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
genomic: GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAGgtttgtattc ... tttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
EST: gi|21638676|gb|BM139722.1|BM139722
EST:     GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAG                         GCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
genomic: GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAGgtttgtattc ... tttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
EST: gi|192317305|gb|FK010536.1|FK010536
EST:     GCAAGATGGATCTGCAGAAGCTACAG                         GCTCCACA-CTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
genomic: GCAAGATGGATCTGCAGAAGCTACAGgtttgtattc ... tttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
EST: gi|192317304|gb|FK010535.1|FK010535
EST:     GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAG                         GCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
genomic: GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAGgtttgtattc ... tttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
EST: gi|192302385|gb|FG995897.1|FG995897
EST:     GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAG                         GCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC
genomic: GGTCCACCAGAGGCTCTTACCTTAGCAAGATGGATCTGCAGAAGCTACAGgtttgtattc ... tttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaccatcttatttcctgtggctggtatgatatggtaaagattgtttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGCAATCTTGAAACAACTTTGGCACCATCCAGATGCAATATTGTGCTGTTCT
                                          ttgtttctttc  CT-rich tract
      atcttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taattgtctgaaaaaggctcagtttcagatacaaattgcacaaattttaccatcttatttcctgtggctggtatgatatggtaaagattgtttctttcagGCTCCACACCTGCACAGAGCTTTTCAGCGTTGAGTCCACATCTGGTGATGCAATCTTGAAACAACTTTGGCACCATCCAGATGCAATATTGTGCTGTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- -ttgtctg
- - - - - - - - - - - - - -gatacaaa
- - - - - - - - - - - - - - - - - - tgcacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatatg