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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctggaaccattttgtttattttctaaatgataaaattttggtgtctaaatctctaatatattaaagcaccggtcgtcccgcgtcaatat...

Basic information

species Zea mays
transcript GRMZM2G702490_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 2
TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctgga-accattttgtttattttctaaatgataaa-attttggtgtct----aaatctctaatatattaaagcaccggtcgtcccgcgtcaatat
||| || |||||||| || |||||||| |||||||| ||||||||||||||||| ||||||||||| || ||||||||||| |||||||||||||||||||| ||  |  ||||    |||||||| |||||   |  ||| |    ||  ||   |||    || | || ||| | || ||  | ||    |   ||  ||||| 
TTGTACCGCTGGTGGTGCTTATATTCCGGCAATGGCTGATGAGAGTGTAATAGTAAAGGGAAATGGAACAATATTTCTAGCTGGTCCACCACTTGTAAAGgtgagtgttctctgcctgccattttgattattcattttatgttttgcatggtgagatcttgagaactatccaatgttttcaa--atcgcctat---gcaccaata-

upper sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G33620.1 (Glycine max), 5'ss of exon 2
TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctggaaccattttgtttattttctaaatgataaaattttggtgtctaaatctctaatatattaaagcaccggtcgtcccgcgt--caatat----------------------------------------------------------------------------
||||||||||||||| || ||||||||||| ||||| ||||| ||||| || || ||||||||||| || || ||| |||| || ||||| ||||| |||||  |      ||       |  |  | |  | ||   ||||||  | | | | | |  || |     || || ||   | | |  |      |  ||||||                                                                            
TTGCACTGCTGGTGGCGCTTATATTCCTGCTATGGCCGATGAAAGTGTGATGGTCAAGGGAAATGGCACCATTTTTTTAGCAGGGCCACCTCTTGTTAAGgtttgctctagctactcttgtact-ctaaaatactgtgtgataatctctggctatttctatgttcttgatttttaaaatctgtttcttttaaatttcaatattttaacactaacaatgtgtttgtgtattttctatgcatttataaccaaaattaaccttaattaaatgattttatag

upper sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G14860.1 (Glycine max), 5'ss of exon 2
TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctggaaccattttgttt----attttctaaatgataaaattttggtgtctaaat-ctctaatatattaaagcaccggtcgtcccg-cgtcaatat-----------------------------------------------------------------------------
||||||||||||||| || ||||||||||| ||||| ||||| ||||| || || ||||||||||| || || ||| |||| || ||||| ||||| ||||| ||    |   |  ||  || || |     || || |  |||||||  | | | | | |  ||  |||   || |||||  |    || |       |||||||                                                                             
TTGCACTGCTGGTGGCGCTTATATTCCTGCTATGGCTGATGAAAGTGTGATGGTCAAGGGAAATGGTACCATTTTTTTAGCAGGGCCACCTCTTGTTAAGgttagc---tctagctactcttgtgctccaaaatgttttgtatgataatctctggctatttctatgttcttgaattttaaaatatgtttcttttaaatttcaatattttgacattaacaatgtgttgatgtattttttatgcatttatgaccaaaattaaaccttaattaaatgattttttag

upper sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctggaaccattttgtttattt-tctaaatgataaaattttggtgtctaaatctctaatatattaaagcaccggtcgtcccgcgtcaatat--
 |||||||||||||| || || |||||||| ||||| ||||| |||||||| || || || ||||| || |||||| |||| || || |||||||| |||||||  || ||||  |   | ||| | | | | |||   |  |   | | |   ||   | | |||     ||  ||       |      || |    |   
CTGCACTGCTGGTGGTGCCTACATTCCTGCCATGGCTGATGAAAGTGTAATGGTCAAAGGGAATGGTACCATATTTTTAGCAGGACCGCCACTTGTCAAGgtca--attttctcaagttactttctctctctctctctctcgttctagtcttaagt---agtttcttgagaatctaacgctaaatgaaaaagcttttgaacag

upper sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 5'ss of exon 3
TTGCACTGCTGGTGGGGCATATATTCCTGCAATGGCGGATGAGAGTGTAATAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatattctggaaccattttgtttattttctaaatgataaaattttggtgtctaaatctctaatatatta---aagcaccggtcgtcccgcgtcaatat-------
||| ||||||||||| || ||||| ||||||||||||||||| ||||| || || || |||||||| || ||||||||||| || || |||||||| ||||| ||    |||  || |  |||||     |  ||||||| |  |  |   ||| ||  ||   ||||   ||    | |    |   ||  |  |   |  |       
TTGTACTGCTGGTGGTGCTTATATACCTGCAATGGCGGATGAAAGTGTTATGGTCAAAGGAAATGGTACCATATTTCTAGCTGGGCCTCCACTTGTGAAGgttag----ttccagatc--ttttggca--tgcctaaatgcttca--tgcagtggctggattcataattctttttgcatgttttgcatgtttcctgaagaattataaaaa

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|211125174|gb|FL001724.1|FL001724
EST:     TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
genomic: TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatat ... ttttttgtagGCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
EST: gi|60341832|gb|DN208805.1|DN208805
EST:     TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
genomic: TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatat ... ttttttgtagGCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
EST: gi|211125176|gb|FL001726.1|FL001726
EST:     TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
genomic: TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatat ... ttttttgtagGCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
EST: gi|211125178|gb|FL001728.1|FL001728
EST:     TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAG                         GCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA
genomic: TAGTTAAGGGAAATGGGACTATATTTCTAGCGGGTCCACCACTTGTAAAGgtcagaatat ... ttttttgtagGCTGCTACAGGAGAGGAGATATCTGCTGAGGACCTTGGTGGAGCATCAGTA