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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggcttttctctagtcctctctgcttcctcattttattttgctggttactgtag

Basic information

species Glycine max
transcript GLYMA08G20360.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os06g36650.1 (Oryza sativa), 5'ss of exon 11
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgta---tacaagttaattacattt---tctttttcctttcaaaaatttcagatacgtttggcttttctctagtcct--ctctgcttcctcattttattttgctggttac-tgtag-------------------------------------------------
   || || || |   ||||  ||   ||||| || |||||  | |||||||| ||||||||||||| ||| || |||| ||||||||| || || |||||||   ||| |   |    ||| |   |||   |   |    ||  ||| | | |  |   |  |  ||    |||  ||||| |  | |  |        |||   |  | ||                                                  
AGGGTCATCAGGCAGCAATTCTCAAGTTGCACTGTGGTAACTATCGCTCACAGGGTTCCAACTGTAACAGACAGTGACAAGGTCATGGTACTTTCATATGgtaagttactacacacacgcatatcaatctgaatatctgaggaaggttctggtccagtcatcgctcatccgaaccttcctctgatggccctgtcatccaaactgcacatatataaactgcacatatttggatgattcaagctgatggcccttctgtttgtgcag

upper sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G113203_T01 (Zea mays), 5'ss of exon 10
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggcttttctctagtcctctctgcttcctcattttatt-ttgctggttactgtag------------------------------------------------------------------------------------
 |||| || || |   | ||  ||   ||||||||| ||||| | |||||||| || |||||||| | ||| || |||| |||||||||||||||||| |||||    ||||   |     | |||   | |  |  |  | |||| | ||     |  |  || |   | || |  |      |  | | |   ||  |  | |                                                                                      
AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtat----gttatacaagacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag

upper sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G059159_T01 (Zea mays), 5'ss of exon 3
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggcttttctctagtcctctctgcttcctcattttatt-ttgctggttactgtag------------------------------------------------------------------------------------
 |||| || || |   | ||  ||   ||||||||| ||||| | |||||||| || |||||||| | ||| || |||| |||||||||||||||||| |||||    ||||   | |   | |||   | |  |  |  | |||| | ||     |  |  || |   | || |  |      |  | | |   ||  |  | |                                                                                      
AAAGTAATCAGGCAGCAGTTCTCAAGTTGCACGGTTATAACCATAGCTCACAGGGTACCAACTGTGACAGACAGTGACAAGGTCATGGTCCTGTCCTACGgtat----gttatacaaaacatttttcgtcatgtagcatctgcagaaaagtccaattcattcctcggaatatcagtatgacagataaactatcaatgccttatatgatatattacaagtatatcaccaagcttactctatacgtgtatgtgtatatgtatgattcatgacgatgattttctaattgtgcag

upper sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 22
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggcttttctctagtcctctctgcttcctcattttattttgctggttactgtag
  | | || || |  |||||     | || |||||  |||| || |||||||||||||| || || |||||||| ||||||||||||||||| || |||||||| ||| |  | | ||            |||   |   ||  | |   |||||  ||     |  ||   ||        || |   || | | | |  |||||
AGAATTATCAGGCAGGAATTCTTGAACTGTACGGTGATAACAGTAGCTCACAGAGTTCCCACAGTTATAGATAGTGACATGGTCATGGTCCTCTCTTATGgtatgcaattccaatccaagcctaagccagttttggagtattgggtt---tttggtatt-----aaccccaacttacataaaatatcggttggtttgattttgtag

upper sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 5'ss of exon 10
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggctttt--ctctagtcctctctgcttcctcattttattttgctggttactgtag
  | | || ||||  |||||  || | || || ||  |||| || |||||||||||||| ||  | |||||||||||||||||||||||||| || |||||||| ||| |  | | ||           | |     | |||  ||  | || || ||||    |||  ||    | | |    || |   || | | | |  |||||
AGAATTATCAGACAGGAATTCTCAAATTGTACAGTGATAACAGTAGCTCACAGAGTTCCCACACTCATAGATAGCGACATGGTCATGGTCCTCTCTTATGgtatgcaattccaatccaa---------gcctaagccagttttgga-gcattgggtttttggtgctaacccaacttacataaa-atatcggttggtttgattttgtag

upper sequence: GLYMA08G20360.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 5'ss of exon 11
CAAGTGATTAGACGAGAATTTGCAGAATGCACGGTTGTAACCGTGGCTCACAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagttaattacattttctttttcctttcaaaaatttcagatacgtttggcttttctctagtcctctctgcttcctca--ttttattttgctggttactgtag
  | | || || |  |||||  || | || || ||  | || || ||||||||||||||||| || || || || ||||||||||||||||| || ||||||||  || |||             || |  | |  | ||||  | |||  | || |||  |    |     | |||| |  |     |  || | | | |  |||||
AGAATTATCAGGCAGGAATTCTCAAACTGTACAGTGATTACAGTAGCTCACAGAGTTCCAACAGTCATGGACAGTGACATGGTCATGGTCCTCTCTTATGgtatg-aaatta-------------ttccactccgcagatttggggtac--tgggttttgttgatattgagccagctttcataaacactggttggtttgattttgtag

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|5760748|gb|AI966111.1|AI966111
EST:     CAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATG                         GGAAACTAGTGGAATATGATGACCCTTCAAAACTTATGGAGACCAACTCTT
genomic: CAGAGTTCCAACTGTAATAGATAGCGACATGGTCATGGTCCTGTCCTATGgtatacaagt ... gttactgtagGGAAACTAGTGGAATATGATGACCCTTCAAAACTTATGGAGACCAACTCTT