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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCTCACTTAATCAGTTTCAGACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatcattttatcgtagtagaccatgaaattgtgattaccacgttatttctctgttattattaattttttatttgatttgattgttctgaatcagtttctatttatttactggtcattttaaagaccacaaatgttcgattgtacttgaatgcaattgttatgaatgatgcattgaaattggtttttcag

Basic information

species Glycine max
transcript GLYMA11G06900.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G06900.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ06918 (Selaginella moellendorffii), 5'ss of exon 14
GACCTCACTTAATCAGTTTCAGACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatcattttatcgtagtagaccatgaaattgtgattaccacgttatttctctgttattattaattttttatttgatttgattgttctgaatcagtttctatttatttactggtcattttaaagaccacaaatgttcgattgtacttgaatgcaattgttatgaatgatgcattgaaattggtttttcag
|||||||  | || || || |  |||||||||||||| || ||||||||| |||||||||| || || || ||| |||||  |  || | ||  | ||||  |   | | |   |  |  | || | | |                                                                                                                                        
GACCTCATCTTATTAGCTTTAAGCCACAGGCTCGAAACGTCCCATTGCAAGCTTCCATGACCGTAACGGACGgtaagtatt-tgctaacataagaaaccacaaccgtctaagagcttc--tcttccacag----------------------------------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA11G06900.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ34431 (Selaginella moellendorffii), 5'ss of exon 14
GACCTCACTTAATCAGTTTCAGACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatcattttatcgtagtagaccatgaaattgtgattaccacgttatttctctgttattattaattttttatttgatttgattgttctgaatcagtttctatttatttactggtcattttaaagaccacaaatgttcgattgtacttgaatgcaattgttatgaatgatgcattgaaattggtttttcag
|||||||  | || || ||||  |||||||||||||| || ||||||||| |||||||||| || || || ||  |||||  |  || | ||  | ||||  |   | | |   |  |  | || | | |                                                                                                                                        
GACCTCATCTTATTAGCTTCAAGCCACAGGCTCGAAACGTCCCATTGCAAGCTTCCATGACCGTAACGGACGgcaagtatt-tgctaacataagaaaccacaaccgtctaagagcttc--tcttccacag----------------------------------------------------------------------------------------------------------------------------------------
















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|254314276|gb|GR831905.1|GR831905
EST:     ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATG                         AACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
genomic: ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatca ... ggtttttcagAACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
EST: gi|208114732|gb|GD913029.1|GD913029
EST:     ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATG                         AACCTGGTTACTATGAGGATGG
genomic: ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatca ... ggtttttcagAACCTGGTTACTATGAGGATGG
EST: gi|208325405|gb|GE118429.1|GE118429
EST:     ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATG                         AACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
genomic: ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatca ... ggtttttcagAACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
EST: gi|33389033|gb|CA852240.1|CA852240
EST:     ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATG                         AACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
genomic: ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatca ... ggtttttcagAACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
EST: gi|15814619|gb|BI786894.1|BI786894
EST:     ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATG                         AACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC
genomic: ACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatca ... ggtttttcagAACCTGGTTACTATGAGGATGGAGAGTTTGGGATAAGATTGGAGAATGTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACCTCACTTAATCAGTTTCAGACCACAGGCTCGAAATGTACCATTGCAATCTTCCATGACTGTTACAGATGgttagtatcattttatcgtagtagaccatgaaattgtgattaccacgttatttctctgttattattaattttttatttgatttgattgttctgaatcagtttctatttatttactggtcattttaaagaccacaaatgttcgattgtacttgaatgcaattgttatgaatgatgcattgaaattggtttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG