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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTATGTTGTTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatcaaattcactttcatatatctgtttgtgtgtgtgttattccaaacaaaatttgaattggttcatggattacttgcag

Basic information

species Glycine max
transcript GLYMA11G01380.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G01380.2 (Glycine max), 5'ss of exon 5
lower sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTTATGTTGTTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatcaaattcactttcatatatctgtttgtgtgtgtgttattccaaacaaaatttgaattggttcatggattacttgcag
|| || || || |||  ||| ||||| ||||| || || ||||||||||| ||||||||||||||| | |  |   |||| || |   || || ||           ||   |  | |  | |    | ||  ||||| |   |||
ATATACGTGGTGGATTCCTTAGATCGAGAGAGGATCGGGAAAGCAAAGCAAGAATTTCAGgtataatacctcaga-acttgcaaaagacttttcgtaaactc-----tctggattataccttaccctgctctcggattgcc-acag
















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|5057972|gb|AI736448.1|AI736448
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCATGAATTTCAG                         ACAATCATAAATGACCCATTTATGCTCAATAGTGTCA
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCA
EST: gi|298199192|gb|HO042555.1|HO042555
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAG                         ACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
EST: gi|298170232|gb|HO018856.1|HO018856
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAG                         ACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGG
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGG
EST: gi|298188565|gb|HO035258.1|HO035258
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAG                         ACAATCATAAATGACCCATTTACGCTCAATAGTGTCATCTTGGTGTTTGCC
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
EST: gi|298172316|gb|HO019356.1|HO019356
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAG                         ACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
EST: gi|298185092|gb|HO030305.1|HO030305
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAG                         ACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC
EST: gi|192296463|gb|FG989828.1|FG989828
EST:     TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAG                         ACAATCATAAATGACCCATTCATGCTCAATAGTGTCATCTTGGTGTTTGCC
genomic: TTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatc ... ttacttgcagACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTATGTTGTTGATAGCTTGGATCGTGAGAGAATAGGTAAAGCAAAGCAGGAATTTCAGgtataacatcaaattcactttcatatatctgtttgtgtgtgtgttattccaaacaaaatttgaattggttcatggattacttgcag

- - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - GCAAAG