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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttagctgtcttgttaccaggaaaaaatcttattgaagtgttagtaccttgttttcatgtatggtgctctaatttatcttaaaaatattattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTCCATGTCCTTGATTTCATACCGTGATTTGGTTGGCGTGGCCTATACTGAA

Basic information

species Zea mays
transcript GRMZM2G158479_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 4
attttagctgtcttgttaccaggaaaaaatcttattgaagtgttagtaccttgttttcatgtatggtgctctaatttat-cttaaaaatattattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTCCATGTCCTTGATTTCATACCGTGATTTGGTTGGCGTGGCCTATACTGAA
||   |    |||| |   |   | |||||| | || ||    || |||| | || |      |    |  |   ||||  || || |  |   ||  ||| ||||||||||| ||||||||||| || ||||| ||||||||||| || |||||||| || ||||| ||||| ||||||||||| |||||||| ||||||
atcacaatattcttttgctcccaagaaaatcctttt-aaccactactaccctattcttgctgtttactcattgtcttatatttgaacacttctatgatcagTATTCGGCGTGGACATCAAGTTTATACACAAGTGTGTGCCTCTTGCCATTCCATGTCATTAATTTCGTACCGAGATTTGGTTGGTGTGGCCTACACTGAA

upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G22530.2 (Glycine max), 3'ss of exon 3
attttagctgtcttgttaccaggaaaaaatcttattgaagtgttagtaccttgttttcatgtatggtgctctaatttatc---ttaa--aaatattattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTCCATGTCCTTGATTTCATACCGTGATTTGGTTGGCGTGGCCTATACTGAA
       |  || | |   ||  |  || | |  ||      | | | |  | |    || |||  |  |  |  |  |    ||||   | | | | ||  ||| ||||| ||||| |||||||||||     |||| ||||| |||||||| || ||||| ||||| |||||||||||||||||||| || || ||||| |||
----ccaccatcatatggtcaa-attaattttgttttttacatgaatgctatataactatttatactaattgaggtcttacagttaactgattttgaatgagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTCTATGTCTTTGATATCATACCGTGATTTGGTTGGTGTTGCTTATACAGAA

upper sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G07020.1 (Glycine max), 3'ss of exon 3
attttagctgtcttgttaccaggaaaaaatcttattgaagtgttagtaccttgttttcatgtatggtgctctaatttatc---ttaa--aaatattattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTCCATGTCCTTGATTTCATACCGTGATTTGGTTGGCGTGGCCTATACTGAA
       |  || | || | |   ||   | || ||  |   | | | |  | |    || |||  |  |  |  |  |    ||||  || | | | |   ||| ||||| ||||| |||||||||||     |||| ||||| |||||||| || ||||| ||||| |||||||||||||||||||| || || ||||| |||
----ccaccctcatatttcaaattaattgttttttttta-catgaatgctatataactatttatactaattgaggtcttacagttaaccaattttgaataagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTCTATGTCTTTGATATCATACCGTGATTTGGTTGGTGTTGCTTATACAGAA

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|31356708|gb|CD441065.1|CD441065
EST:     GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATC                         AATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
genomic: GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATCgtaagtcaac ... tattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
EST: gi|67028963|gb|CO457712.1|CO457712
EST:     GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATC                         AATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
genomic: GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATCgtaagtcaac ... tattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
EST: gi|211454193|gb|FL047438.1|FL047438
EST:     GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATC                         AATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
genomic: GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATCgtaagtcaac ... tattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
EST: gi|31356905|gb|CD441262.1|CD441262
EST:     GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATC                         AATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
genomic: GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATCgtaagtcaac ... tattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
EST: gi|31354314|gb|CD438671.1|CD438671
EST:     GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATC                         AATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC
genomic: GATTATCCCTGGCCACATGCTGGCATCATGAGCTCGTATGATCACGCATCgtaagtcaac ... tattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaccttgttttcatgtatggtgctctaatttatcttaaaaatattattgtacagAATTCGGCGTGGGCATCAAGTTTACACGCAAGTTTGTGCCTCTTGTCACTCCATGTCCTTGATTTCATACCGTGATTTGGTTGGCGTGGCCTATACTGAA
                       ctctaat  putative branch site (score: 3)
                        tctaatttatcttaaa  TA-rich tract