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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAGAGTTGTTCTCCACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatgactacaaatcaactaaactctttttgtttgatgtatctaatatgcattgttttttttttttttttccttcgtctggcatatgtttttgactgaatgctataagatgaaacttgcttttgttacatgttgcag

Basic information

species Glycine max
transcript GLYMA10G30880.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30880.3 (Glycine max), 5'ss of exon 9
lower sequence: AT1G08630.5 (Arabidopsis thaliana), 5'ss of exon 9
AATGAGAGTTGTTCTCCACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatgac-----tacaaatcaactaaactctttttgtttgatgtatctaatatgcattgttttttttttttttttccttcgtctggcatatgtttttgactgaatgctataagatgaaacttgcttttgttacatgttgcag
 || ||| | ||| | |||||||| ||| || ||||||||||||| ||  ||||||| ||||||||||| |  |  |      ||   ||| |||| || | || | |  | || | |   ||   ||| | |    ||  | ||| ||| | | |                                                         
GATCAGAATAGTTATACACCACCAGATAACAACAAGTGATGTGCATTACACATTGTCTTGCTTTCAGgtaaaaagaatattcatatttatctactacacaccttgt-tacggtgaaacatcta---attatatgaaattgatgttttctttggcag---------------------------------------------------------

upper sequence: GLYMA10G30880.3 (Glycine max), 5'ss of exon 9
lower sequence: Vv14s0036g00520.t01 (Vitis vinifera), 5'ss of exon 10
AATGAGAGTTGTTCTCCACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatgactacaaatcaactaaactctttttgtttgatgtatctaatatgcattgttttttttttttttttccttcgtctggcatatgtttttgactgaatgctataagatgaaacttgcttttgttacatgttgcag
 || |||||||| ||||||||||||||||||| || ||||||||| ||| ||||||| ||| ||||||||||||  | | || |    || |||||   ||   ||    ||    |   |||   | |     ||  | |  |  | | |                                                         
GATTAGAGTTGTGCTCCACCACCAAATATCAGGAACTGATGTGCAGTATACATTGTCATGCATTCAGgtgatga--attgcaca----ctgaactccactt-cctgccccattcttt-cccataaatctgacacttgctctaatgtggcag---------------------------------------------------------
















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|254320848|gb|GR827297.1|GR827297
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|14990470|gb|BI316143.1|BI316143
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|17401408|gb|BM178190.1|BM178190
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|193673250|gb|FK615108.1|FK615108
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|254336691|gb|GR842870.1|GR842870
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|21256589|gb|BQ453477.1|BQ453477
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|22523739|gb|BU082550.1|BU082550
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAA
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAA
EST: gi|13482379|gb|BG511722.1|BG511722
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|254336692|gb|GR842871.1|GR842871
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|10253210|gb|BE820976.1|BE820976
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|8286113|gb|BE023672.1|BE023672
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|31460921|gb|CD402949.1|CD402949
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACCAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
EST: gi|6964103|gb|AW432796.1|AW432796
EST:     ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAG                         CAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG
genomic: ACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatga ... catgttgcagCAAGCTCTAGCTGTCAAGGGAGTACAAAATGAAATGGGCAACTAGTGGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAGAGTTGTTCTCCACCACCAAATATCAGCAAGTGATGTGCAATATGCATTGTCGTGCTTTCAGgtgatgatgactacaaatcaactaaactctttttgtttgatgtatctaatatgcattgttttttttttttttttccttcgtctggcatatgtttttgactgaatgctataagatgaaacttgcttttgttacatgttgcag

- - - - - - - - - - - - - - - AGCAAG