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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATCCCGATCAACAAGCAGCTCTACAGCTTCAGCTATGTCTGCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacggcttgtctctacattttagacacgaaacctcttcgatgccatctcgcagaaaaacaagaaataaaaaaacaaaagctttacaattgttcttgaatggacag

Basic information

species Zea mays
transcript GRMZM2G161852_T01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161852_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os11g14080.1 (Oryza sativa), 5'ss of exon 9
CCATCCCGATCAACAAGCAGCTCTACAGCTTCAGCTATGTCTGCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacggcttgtctcta-cattttagacacgaaacctcttcgatgccatctcgcagaaaaacaagaaataaaaaaacaaaagctttacaattgttcttgaatggacag
|||| || ||||||||||| ||||||||||| ||||||||||||||||| |  || || || ||| | ||||| || |||||||| ||| ||||| |  || ||  ||  |  ||     |        || | ||    |    |    |     || |   |    | || |   ||   ||  || |  | |    
CCATTCCAATCAACAAGCAACTCTACAGCTTAAGCTATGTCTGCTTCACGGCTGGTGCAGCTGGAGTAGTTCTTTCAGCTTTCTACATATTGgtatgatttttcattagtacattgaggcctcgtttggtttggtgtggaccgagattttagttcaaagtcccagcctataaac---acggatgggctgggttcg----

upper sequence: GRMZM2G161852_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA13G20850.1 (Glycine max), 5'ss of exon 12
CCATCCCGATCAACAAGCAGCTCTACAGCTTCAGCTATGTCTGCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacggcttgtctctacattttagacacgaaacctcttcgat--gccatc--tcgcagaaaaacaagaaataaaaaaac--aaaagctttacaattgttcttgaatggacag
| |||||||| |||||||| |||||||||||||||||||| || |||||||  || || || ||||||||  |||| |  |||||  ||||||||       | |  |    ||| |   |||   |  |  ||  | |||   | | |    |     |  |||     |  ||||    ||||                   
CTATCCCGATTAACAAGCAACTCTACAGCTTCAGCTATGTTTGTTTCACAGCTGGGGCAGCTGGAATTGTCTTCTCTGTGTTCTACCTACTGgtaaatggaatattaagtgattaaagtggaagaataatgtattggtcattaattgtattttattcttatttaattttcctcaaaaatcatacag------------------

upper sequence: GRMZM2G161852_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA10G06640.1 (Glycine max), 5'ss of exon 6
CCATCCCGATCAACAAGCAGCTCTACAGCTTCAGCTATGTCTGCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacggcttgtctctacattttagacacgaaacctcttcgatgccatctcgcagaaaaacaagaaataaaaaaacaaaagctttacaattgttcttgaatggacag
| ||||| || |||||||| |||||||||||||||||||| || |||||||  || || || ||||||||  |||| |  |||||  ||||| ||       |||  |   || ||  |  |||        || |  | | |   |  ||  |   || |      |     ||||  |||  ||   |    ||||
CTATCCCAATTAACAAGCAACTCTACAGCTTCAGCTATGTTTGTTTCACAGCTGGGGCAGCTGGAATTGTCTTCTCTgtgttctacctactgctaaatggaatcttaa---ttaagtaattaaagtagaagaattctttattggtcattaattaattatgagttctta-----tttaatattcctcaaaatcatacag

upper sequence: GRMZM2G161852_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA03G34220.1 (Glycine max), 5'ss of exon 11
CCATCCCGATCAACAAGCAGCTCTACAGCTTCAGCTATGTCTGCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacg-gcttgtctctaca------ttttaga-----cacgaaacctcttcgatgccatctcgcagaaaaacaagaaataaaaaaacaaaagctttacaattgttcttgaa---tggacag
|  | || || |||||||| |||||||||||||||||||| || |||||||  || || || ||||||||  |||| |  ||||| ||||||||| |  |  ||    | |       ||| ||      |  ||   | ||  ||    || | ||          |  |   |    |  |   | |       |||||||   |  ||||
CTTTACCAATTAACAAGCAACTCTACAGCTTCAGCTATGTTTGTTTCACAGCTGGGGCAGCTGGAATTGTCTTCTCTGGGTTCTACATACTGgtaggtacaagtgaaaaaaaaaaatcttttgagttagtattaataattttttattttttcccccattttggttttatctctcattggatgattctgatctacactcttgaaaattaaacag

upper sequence: GRMZM2G161852_T01 (Zea mays), 5'ss of exon 11
lower sequence: Vv08s0007g04880.t01 (Vitis vinifera), 5'ss of exon 11
CCATCCCGATCAACAAGCAGCTCTACAGCTTCAGCTATGTCTGCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacggcttgtctctacattttagacacgaaacctcttcgatgccatctcgcagaa--aaacaagaaataaaaaaacaaaagctttacaattgttcttgaatggacag-------------------
| || || |||||||| |||||||| |||||||||||||| || |||||||  || || || |||||||| ||||| || |||||| || |||||   |   ||  | ||  | | | |   |   | ||   ||   ||    | ||  ||  |   |||   |  | || |  ||     || | |     ||  |                     
CTATTCCCATCAACAAACAGCTCTATAGCTTCAGCTATGTTTGTTTCACAGCGGGTGCAGCTGGAATTGTACTCTCTGCATTCTATTTAGTGgtaaaacagttcaatccagatgaaatattgacatttttttctggtttcaaagataattaattatagaatcccaggagaataatttgttttttttcccattgtgttcttcctcttcatgagtaaacag

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|160481447|gb|EY254551.1|EY254551
EST:     GCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTG                         ATTGATGTCTGGGGACTGAGGACGCCATTCCTCTTCCTGGAGTGGATAGGC
genomic: GCTTCACAGGCGGCGCGGCAGGAATTGTTCTCTCGGCTTTCTATATACTGgtacggcttg ... gaatggacagATTGATGTCTGGGGACTGAGGACGCCATTCCTCTTCCTGGAGTGGATAGGC