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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtgttgctgatcatgtttagggtctggatcttactaacaattttgatatttaattgtccttacatcaccagaggtgatgatcc...

Basic information

species Zea mays
transcript GRMZM2G024482_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024482_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g12840.1 (Oryza sativa), 5'ss of exon 3
AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtgttgctgatcatgtttagggtctggatc--ttacta---acaattttgatatttaattgtccttacatcaccagaggtgatgatcc
|||||||||||| |||||||||||||| || ||||||||||| |||||||| || ||||| || ||||| ||||||||||| ||||| |||||||| ||||||||    | | || | | |||     |||||   | |     ||   ||| ||   |     |   |  ||   ||   ||  |||| |     |  || || 
AGAATATGCAGTTGGGATCAAGAATGTCACGATAAATGATAACTTCTTCCCTGGGCATTTCCCCGAACGACCCATAATGCCTGGTGTTCTCATGGTTGAGgtatg----attccactatattggcatccatgtgctgtgatcaaattgtttagtatatatggcctctgttgtttcctgaggtttgatcatctctcattgtggtc-

upper sequence: GRMZM2G024482_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G07870.1 (Glycine max), 5'ss of exon 3
AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtgttgctgatcatgtttagggtctggatcttactaacaattttgatatttaattgtccttacatcaccagag-gtgatgatcc
||  | ||||||||  || |||||||| ||||||||||| || || || || || |||||||||||| | || || ||||| ||||| ||| |||| ||||||  ||| |          ||  |  ||   ||     |||      | ||  |  |     ||||| |||||       | |     | |   | ||  
AGTTTCTGCAGTGGCCATAAAGAATGTGACAATAAATGACAACTTTTTTCCTGGGCATTTTCCTGAAAGACCAATCATGCCTGGTGTTCTCCTGGTTGAGgtaaacactatgctgacccttttatattccctttccttttctcttgtcttcttgcc-tgaaactatttgattgtgaaagtgtaagttctgtgctttaatta

upper sequence: GRMZM2G024482_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G05800.1 (Glycine max), 5'ss of exon 3
AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtg----ttgctgatcatgtttagggtctggatcttactaacaattttgatatttaattgtccttacatcaccagaggtgatgatcc
||  | ||||||||  || |||||||| ||||||||||| || ||||| || ||||||||||| ||| | || || ||||| ||||| || ||||||||||||   | | || || ||||    ||||||        ||   |    || |  ||||  ||||||   |||  |||||  || |        ||| |      
AGTTTCTGCAGTGGCCATAAAGAATGTGACAATAAATGACAACTTCTTTCCTGGACATTTTCCAGAAAGGCCAATCATGCCTGGTGTTCTAATGGTCGAGgtactaaactatacactgtgctgcttgctgcctgcccctacctttattatatctctaattattttgtccttttcttgtctctaaacatgttatggtaaaa----

upper sequence: GRMZM2G024482_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G19200.1 (Glycine max), 5'ss of exon 2
AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtgttgctgatcatgtttagggtctggatcttactaacaat-tttgatatttaattgtccttacatcaccagaggtgatgatcc--
||  | ||||||||  || |||||||| ||||||||||| || ||||| || ||||||||||| ||| | ||||| ||||| ||||| || ||||| ||||||   |   || || | || | ||     ||||     |||   |  |  |  |  |   |  | | |||   |     ||| |  | | |  || |     
AGTTTCTGCAGTGGCTATAAAGAATGTGACAATAAATGACAACTTCTTTCCTGGACATTTTCCAGAAAGGCCCATCATGCCTGGTGTTCTAATGGTTGAGgtactaaaatatgcactatgctcctacctttgttgtatctcttatttattttgtccttgccttgtctctaaacatgt---catgataaaatggaatcaatttg

upper sequence: GRMZM2G024482_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT2G22230.1 (Arabidopsis thaliana), 5'ss of exon 3
AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtgttgctgatcatgtttagggtctggatcttactaacaatt-ttgatat-ttaattgtcct-tacatcaccagaggtgatgatcc
 |  |  || || |  || |||||||| || || ||||| ||||||||||| || ||||| |||||||| || || ||||| ||||| |||||| | ||||||   |  |     |   |||||  |   |  |         ||||  |       |  ||||||| |||  |||  | | | |  | | | |   | |   
TGTTTCAGCTGTAGCTATTAAGAATGTCACCATCAATGACAATTTCTTCCCTGGCCATTTCCCTGAACGACCAATCATGCCTGGTGTTCTCATGATTGAGgtaataataatcgtttaaagttgcaaacttttgtcctcaagaagatcaaatattttgtaattgatatgttagctgttgtattcctttcaaaatgctttaa---

upper sequence: GRMZM2G024482_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0055g01100.t01 (Vitis vinifera), 5'ss of exon 3
AGAATATGCAGTGGGGATCAAGAATGTTACAATAAATGATAATTTCTTCCCAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcaccaattcattgtgttgctgatcatgtttagggtctggatcttactaacaattttgatatttaattgtcctta-catcaccagaggtgatgatcc
||  | ||| || |  || |||||||| |||||||||||||| ||||| || || |||||||| ||  | || || ||||| ||||| |||||||| ||||||    |   |||       |  | |  || |||      |   |   | ||    |   | ||  |   ||   | |   |  |||    || |     
AGTTTCTGCTGTTGCCATAAAGAATGTAACAATAAATGATAACTTCTTTCCTGGGCATTTTCCCGAGAGGCCAATTATGCCTGGTGTTCTCATGGTTGAGgtaatttcttgttcccgtaccttttaaatatttttttttctttagttgcattatttttaaagttacatgtatgaggtaaatgtttccatttttgctacaa-

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|18179048|gb|BM380258.1|BM380258
EST:     AGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: AGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|211091572|gb|FL457274.1|FL457274
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|33092892|gb|CF052886.1|CF052886
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|166536311|gb|EG218725.1|EG218725
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGA
EST: gi|37396344|gb|CF635461.1|CF635461
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|71305724|gb|DR789001.1|DR789001
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|50338308|gb|CO533434.1|CO533434
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|211091571|gb|FL457273.1|FL457273
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGGTGGA
EST: gi|113669978|gb|DW819268.1|DW819268
EST:     CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAG                         GCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAAC-TGAAGTTGG
genomic: CAGGACATTTTCCTGAACGCCCCATAATGCCCGGTGTCCTCATGGTCGAGgtatgcacca ... ttatccacagGCTATGGCCCAGGTTGGGGGTCTGGTGATGCTGCAACCTGAAGTTGG