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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAACCCTGCCAGGGCCAATGGCCACATATTTAATGTGGGCAACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacag

Basic information

species Glycine max
transcript GLYMA11G19550.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 7
GAAAACCCTGCCAGGGCCAATGGCCACATATTTAATGTGGGCAACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacag
||||| |||||  | |||||||| || || || ||||| || || ||||||||||| ||||||||||||||  | |||||||| ||||   ||||  | | || | | |   | ||||         || | ||  |||        |||||       |||||    || | |||     || |  | || |     
GAAAATCCTGCTCGTGCCAATGGTCAAATCTTCAATGTCGGGAATCCTAACAATGAAGTCACTGTTAGGCAATTGGCTGAAATGATGACAGAGgtaca-tcattagcgtggcaatgttt--------ctttgagcgttt-------ctgttac------tcatgccctaagtcttacatggttgtcctgtacag----

upper sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 7
GAAAACCCTGCCAGGGCCAATGGCCACATATTTAATGTGGGCAACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacag
|| || ||||||||||| ||||| ||||| || |||||||||||||| ||||||||||| ||||||||||||||||| ||||| |||| | ||||| ||| | | | |  ||     ||| |||       |  ||| | |   | |  || ||||| |  ||  ||  || ||| |||    ||| |  |       
GATAATCCTGCCAGGGCTAATGGTCACATCTTCAATGTGGGCAACCCCAACAATGAGGTTACTGTTAGGCAGCTTGCAGAAATGATGACTGAGgtg-aataagcgattggtt-----tatttga-------tgcaatattgatctttatttttgggactctatatattgat-gtttttcttccattcttcag------

upper sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 7
GAAAACCCTGCCAGGGCCAATGGCCACATATTTAATGTGGGCAACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgtta--ttccattattttctatatacag
|| || |||| |||||| ||||| ||||| || |||||||||||||| |||||||| |  || |||| ||||||||| ||||| |||| | ||||| |||||   | |  || || | |||  |    | ||| |  |||  | ||   |    ||| |  ||  ||  ||   |   ||||||||||            
GATAATCCTGGCAGGGCTAATGGTCACATCTTCAATGTGGGCAACCCAAACAATGAAGCTACAGTTAAGCAGCTTGCAGAAATGATGACTGAGgtg-aatgagtcattggtttttttgatgcaa----tatta-atcttaatcttgacctctatggattctatatattgatgacttccttccattattcag---------

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|120491113|gb|EH219280.1|EH219280
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|19936886|gb|BQ081053.1|BQ081053
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|192329859|gb|FK023363.1|FK023363
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|207760735|gb|GD734058.1|GD734058
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|12688166|gb|BG154502.1|BG154502
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|18039409|gb|BM307712.1|BM307712
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|21677203|gb|BQ629554.1|BQ629554
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|22540261|gb|BU090104.1|BU090104
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|15815288|gb|BI787563.1|BI787563
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|19937163|gb|BQ081176.1|BQ081176
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|16105256|gb|BI892996.1|BI892996
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|19934967|gb|BQ079997.1|BQ079997
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|7693239|gb|AW761334.1|AW761334
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|14012078|gb|BG727009.1|BG727009
EST:     ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: ACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
EST: gi|13252497|gb|BG363408.1|BG363408
EST:     TAATGATTCAG                         GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: TAATGATTCAGgtggaatgat ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAACCCTGCCAGGGCCAATGGCCACATATTTAATGTGGGCAACCCTAACAATGAGGTCACTGTTAGGCAGCTTGCTGAAATAATGATTCAGgtggaatgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT