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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactgatagaacaatctgagagaagatgtaatttgacttactttttcaatgctgaatttaacag

Basic information

species Zea mays
transcript GRMZM2G163193_T03
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os02g43350.1 (Oryza sativa), 5'ss of exon 10
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactgatagaacaatctgagagaagatgtaatttgacttactttttcaatgctgaatttaacag------
||||||||||||||||||||| ||||||||||||||||| ||||||||  | ||||||||||||||||| |||||  | || || ||||||||||| |||||||||||  |||||| ||  ||||||||| | | ||| ||  |     |||   |    ||| | || ||   ||           
GAAGGGTAATGAAAAGGCTGTTGTTGCACGGCATGAAGTTGGTCATGCCGTTGTGGGAACTGCTGTAGCAAACCTATTGCCAGGGCAGCCACGTGTGGAGgtttgaacgcaagcaactatcgatagaacagtttaagaaaatgttcgtcttgggcttacattttagtgttgttcttttttccaccag

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA0028S00210.1 (Glycine max), 5'ss of exon 10
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgt------ttgaacttaagcaattactgatag---aacaatctgagagaagatgtaatttgacttactttttcaatgctgaatttaacag----------
|   || | ||| |||||||| |||||||| ||||| |  ||||||||  | || || ||||| || ||||| |||||||||||||||||||||||||||||      |||||  |   | |||||||  |    || ||| | |  |    |  |  |   |  | |       |  |     ||   |          
GCGAGGAAGTGAGAAGGCTGTAGTTGCACGACATGAGGCTGGTCATGCTGTAGTAGGTACTGCAGTTGCGAAGCTTCTTCCTGGACAGCCACGTGTTGAGgtaaactgttgaagatgctctattactggaaactaaaaaatgtcactgccattacagatatgcagattgaacttgtattacgcatatttgcctattttga

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA14G37090.1 (Glycine max), 5'ss of exon 11
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactga---tagaacaatctgagagaa--gatgtaatttgacttactttttcaatgct-gaatttaacag---------------
||| || | ||| |||||||| ||||||||||||||||  ||||||||  | || || ||||| || || |||||||||||||||||||||||||||||||  | |||    | || | ||     |    | || | |        |||  |||  |  ||  |     ||||| | |   |                   
GAAAGGAAGTGAGAAGGCTGTAGTTGCACGGCATGAAGCTGGTCATGCTGTGGTAGGTACTGCAGTTGCAAACCTTCTTCCTGGACAGCCACGTGTTGAGg--taaaccatggaaaatgctctatttttggccatttaaatatgtcaatgccattgcagatatgtagatgatgcttggaccaagttacttgcctgcttgaat

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA18G07280.1 (Glycine max), 5'ss of exon 10
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgt------ttgaacttaagcaattactgatag---aacaatctgagagaagatgta---atttgacttactttttcaatgctgaatttaacag-------
|   || | ||| |||||||| |||||||| ||||| |  ||||||||  | || || ||||| || || || |||||||||||||||||||||||||||||      |||||  |     |||||||  |    || ||| | |  |   ||  |   ||     || |  ||  |       ||||  |         
GCGAGGAAGTGAGAAGGCTGTAGTTGCACGACATGAGGCTGGTCATGCTGTAGTAGGTACTGCAGTTGCAAAGCTTCTTCCTGGACAGCCACGTGTTGAGgtaaaccattgaagatgctatattactggcaactaaaaaatgtcactgccaatacagatatgcagattgcgcttgtatacacatatttgcctatttgaaa

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G39040.1 (Glycine max), 5'ss of exon 11
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactgatagaacaatctgagagaag---atgtaatttgacttactttttcaatgct-gaatttaacag---------------
||| || | ||| |||||||| ||||||||||||||||  ||||||||  | || || ||||| || || ||||||||||||||||||||||||||||||||      |  || |    ||  |       | | | | | |   |||  |||  |  ||        ||||| | |    | |                
GAAAGGAAGTGAGAAGGCTGTAGTTGCACGGCATGAAGCTGGTCATGCTGTAGTAGGTACTGCAGTTGCAAACCTTCTTCCTGGACAGCCACGTGTTGAGgtaaaccatggagaatgctctattcttggccttttaaatatgtcaatgccattgcagatatgcagatgatgcttgtaccacatacttgcctgcttgaatt

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 5'ss of exon 10
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactgatagaacaatctgagagaagatgtaatttg--acttac---tttttcaa----tgctgaatttaacag---------
 || || ||||| ||||| || || ||| |||||||||  || |||||| | || || || ||||| || || |||||| ||||||||||||||||||||||   ||   ||  | ||  |        |  || |  |   ||||  |||   || | |   |  |||||    |||| |  ||    |         
AAAAGGCAATGAGAAGGCAGTGGTCGCAAGGCATGAAGCTGGGCATGCAGTGGTTGGTACCGCTGTTGCAAATCTTCTTACTGGACAGCCACGTGTTGAGgta-aaatgcaaaaactttgtctacatttacgctcattgtttatgttgtttagtacgtgcaaatgattcaagttttgctcatctttgtggtgttgtcag

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 5'ss of exon 10
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactgatag--aacaatctgagagaagatgtaa-----tttgacttactt--tttcaatgctgaatttaacag----------
| |||| | ||| |||||||| ||||||||||||||||  ||||||||| | |||||||||||||| || || |||||||||||||||||||||||||||||  |   ||| |   ||| | | |   || | | |     |     |||     ||  | ||| ||    ||  ||  ||||||   ||          
GCAGGGAAGTGAGAAGGCTGTTGTTGCACGGCATGAAGCTGGTCATGCAGTAGTGGGAACTGCTGTTGCTAATCTTCTTCCTGGACAGCCACGTGTTGAGgtaagttattaggaccttatttacaataaatattttcctttactgcttaacaagtttcaaattatttaacctccctggagaatttggaagacacgtgaga

upper sequence: GRMZM2G163193_T03 (Zea mays), 5'ss of exon 9
lower sequence: PP1S10_296V6.2 (Physcomitrella patens), 5'ss of exon 13
GAAGGGTAATGAAAAGGCTGTCGTTGCACGGCATGAAGTAGGTCATGCACTCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaacttaagcaattactgatagaacaatctgagagaagatgtaatttgacttactttttcaatgctgaatttaacag------------------------------------------------------------------------------------------------
| | ||   |||||||| |||||| ||||||||||| | |||||||||| | || ||||| ||||| || ||  || | ||||| |   |||| ||  ||||   | ||    |  ||| |  | |     | ||        |||| |  |  | |  |  | ||| |  | || ||||                                                                                                 
GCATGGCTCTGAAAAGGGTGTCGTAGCACGGCATGAGGCAGGTCATGCAGTGGTTGGAACCGCTGTTGCCAAGTTTATACCTGGTCTTACACGAGTGCAGgtacaacctc---cttttagttcttggtttctttgtttct---tgtattcagcgtcagctcctaaatccgtatttgaacaaatgacttcatttccctcttatgcatggttgagtaggttacctccaccttctttagccgtgaaatttctcaaatgtggtgttctttttatcttgcag

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|67033989|gb|CO462738.1|CO462738
EST:     TCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAG                         AAATTGAGTATATTGCCAAGGTCAGGAGGTGCATTAGGCTTTACATACACC
genomic: TCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaactt ... aatttaacagAAATTGAGTATATTGCCAAGGTCAGGAGGTGCATTAGGCTTTACATACACC
EST: gi|32823635|gb|CD963357.1|CD963357
EST:     TCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAG                         AAATTGAGTATATTGCCAAGGTCAGGAGGTGCATTAGGCTTTACATACACC
genomic: TCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaactt ... aatttaacagAAATTGAGTATATTGCCAAGGTCAGGAGGTGCATTAGGCTTTACATACACC
EST: gi|71329683|gb|DR801566.1|DR801566
EST:     TCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAG                         AAATTGAGTATATTGCCAAGGTCAGGAGGTGCATTAGGCTTTACATACACC
genomic: TCGTGGGAACTGCTGTAGCGAACCTTCTTCCTGGACAGCCACGTGTTGAGgtttgaactt ... aatttaacagAAATTGAGTATATTGCCAAGGTCAGGAGGTGCATTAGGCTTTACATACACC