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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttgtgttccattactttagaacttagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtgggaacaatcttgttcc...

Basic information

species Zea mays
transcript GRMZM2G039263_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os04g46620.1 (Oryza sativa), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattt-tgtgttccattactttagaacttagtaaccgggaactgggaacttggccacgttcctcgt-tccgggaacgtgggaacaatcttgttcc
||||||| |||||||||||||||||||||||||||||||||||| | ||||| ||||| ||||||||||||||||||||||||||||| ||||||||||||||| |||||||   | |||||   | ||   | | | |      | |     ||   | | ||  |    || | |       |  ||         ||  
GAATTGCATGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAATTGGGTGTTCAAGTCCTTGTAACTGATCCAAGGGAACTTGAGAAAATTCGTCAGAGgtatgtgcatttactttttccaacgcattctgattcatttgttttgtatacttaatgagtcaacaattggggtgttctcttttatctgatttgcacattt--

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA05G29870.1 (Glycine max), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttg--tgttccattactttagaact-tagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtgggaacaatcttgttcc
||||||||||||||||||| || ||||||||||||||||||||  | ||||| |||||| | || |||||||| |||||||| ||||| |||||||| ||||| |  || | ||    ||    | || ||  ||| |  || ||         | | |      | ||     |     |||       | | |||| ||  
GAATTGCTTGTCTTGATTTCAATCTTCAGAAGACAAAAATGCAGTTGGGTGTTCAAGTTTTAGTTACTGATCCTAGGGAACTAGAGAAAATTCGTCAAAGgtactgtcagtatgatcatttgggttctatattactatgatacccaaccttcctggattcattttcctttaatataataagaataaatctata-tcttatt--

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: GLYMA08G12970.1 (Glycine max), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttg--tgttccattactttagaact-tagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtgggaacaatcttgttcc
||||||| ||||||||||| || ||||||||||||||||||||  | ||||| |||||| | || |||||||| ||||| || ||||| |||||||| ||||| |  || |  |    |     | || ||  ||| |  || ||         | | |      | ||         |  ||       |  ||||| |   
GAATTGCCTGTCTTGATTTCAATCTTCAGAAGACAAAAATGCAGTTGGGTGTTCAAGTTTTAGTTACTGATCCTAGGGAGCTAGAGAAAATTCGTCAAAGgtactgtcagtaggaccatatggcttctatattactatgatacccaaccttcctggattcattttccttaaataaaatgaaaatacatctattatcttat---

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT3G20050.1 (Arabidopsis thaliana), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttgtgttccattactttagaacttagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtggga-acaatcttgttcc----
  |||||||| ||||| || || || ||||||||||||||||| || |||||||||||| |||| | ||| ||| | |||||||| ||||| ||||| ||||| ||    || |   |     |||||    || | |  |    |    |     | ||    |||||       |  |   ||       ||||| |||    
AGATTGCTTGCCTTGACTTCAATCTGCAGAAGACAAAAATGCAGCTGGGTGTCCAAGTTGTTGTTAATGACCCACGAGAACTTGAAAAGATCCGTCAAAGgtagtt----ttcgcagttatacacttttcc-ctgaattccttacattcagagtgcttgcttttttcctaccaaatgtcattcggtttgttctcttgatccttgg

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: Vv15s0021g02230.t01 (Vitis vinifera), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttgtgttcca---ttactttagaacttagtaaccgggaactgggaacttggccacgttcctcgttccggga-acgtgggaacaatcttgttcc
| ||||| || || || ||||| ||||| | |||||| |||||| | |||||||||||  | || || ||||||||||| |||||||| |||||||| ||||  |    |  |  | | ||   || ||| |||    | |   |   |  || || | |       ||  |  ||    || | |        |  | |    
GGATTGCCTGCCTCGACTTTAATCTTCAAAGGACAAAGATGCAATTGGGTGTCCAAGTATTGGTCACCGATCCAAGGGAGCTTGAGAAAATTCGTCAAAGgtgatcagttaataagcttcaaaatttcttgagattagaatgcacataacttgagatcgtttttgtttttttttttttttgataagctaacttgagatcg----

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: PP1S97_11V6.1 (Physcomitrella patens), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgc-------attttgtgttccattactttagaacttagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtgggaacaatcttgttcc-------------------------------------------------------------------------------
| || || ||  | ||  | ||| | |||||||||||||||||| | || || || || ||||| || ||||| |||||||| ||||| ||||||||  ||||  | |       |  | |||| |  |   ||  | |     ||     |   |   ||| ||  ||   |  |  |||        |   ||   | |||   |                                                                               
GCATAGCATGCTTGGACGTCAACTTGCAGAAGACAAAAATGCAAATGGGAGTACAGGTCCTTGTGACAGATCCTAGGGAACTGGAGAAAATTCGTCAACGgtaaatactcggttgacatcgtgtgcagtgttttctgcagcacatatttttgccttctcaacgtg--cattcttttgtttctatacgtctataaatgtttttgcaacgcaaatacattgatgaaagttttatcccaataagatctcgtctctggttttaatttgatcaagtaaactgcatctgcag

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: EFJ34091 (Selaginella moellendorffii), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgc-attttgtgttccattactttagaacttagtaaccgggaactggg--aacttggccacgttcctcgttccgggaacgtgggaacaatcttgttcc
||||||| ||||| ||| | |||||||| ||| | ||||||||| | ||||| |||||||| || || |||||| | || || ||||||||||| || ||||| | || ||||| | |||  || ||||     ||  |    |  | ||||    ||||  | |  |||  |                              
GAATTGCGTGTCTAGATGTCAACCTTCAAAAGTCCAAAATGCAAATGGGTGTGCAAGTTCTAGTCACCGATCCACGTGAGCTGGAGAAGATTCGGCAAAGgtaatagctattttcttttctttttcttttttttttcttttttgttatctggtctgacttttctatcttctacag----------------------------

upper sequence: GRMZM2G039263_T02 (Zea mays), 5'ss of exon 7
lower sequence: EFJ12438 (Selaginella moellendorffii), 5'ss of exon 9
GAATTGCTTGTCTTGATTTTAACCTTCAGAAGACAAAAATGCAACTTGGTGTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcattttgtgttccattactttagaacttagtaaccgggaactgggaacttggccacgttcctcgttccgggaacgtgggaacaatcttgttcc
||||||| ||||| ||| | |||||||| ||| | ||||||||| | ||||| |||||||| || || |||||| | || || ||||||||||| || ||||| | ||  ||  | ||   ||  | |     || || | | ||  |||   ||||  | |  |||  |                              
GAATTGCGTGTCTAGATGTCAACCTTCAAAAGTCCAAAATGCAAATGGGTGTGCAAGTTCTAGTCACCGATCCACGTGAGCTGGAGAAGATTCGGCAAAGgtaatagctcttctttttttttttttct---tttttgttatctggt-ctg---acttttctatcttctacag----------------------------

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|31406088|gb|CD484820.1|CD484820
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|211239408|gb|FL328610.1|FL328610
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|33104341|gb|CF064301.1|CF064301
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|211157236|gb|FL334269.1|FL334269
EST:     AAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: AAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|211149768|gb|FL359580.1|FL359580
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|67021395|gb|CO450144.1|CO450144
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|7238110|gb|AW573332.1|AW573332
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|211195400|gb|FL324707.1|FL324707
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|60343155|gb|DN210128.1|DN210128
EST:     GTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|33102590|gb|CF062550.1|CF062550
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|31440979|gb|CD510410.1|CD510410
EST:     GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
EST: gi|61119168|gb|DN560129.1|DN560129
EST:     GTCCAAGTTCTTGTAGCTGATCCAAGGGAACTTGAGAAGATTCGTCAGAG                         AGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC
genomic: GTCCAAGTTCTTGTAACTGATCCAAGGGAACTTGAGAAGATTCGTCAGAGgtatttgcat ... tttttctcagAGAATCTGACATAACAAAGGAGCGAATTGAGAAAATTCTCAAGGCTGGAGC