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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaactgatttgattattatactatactcgtgtgatgaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG

Basic information

species Zea mays
transcript GRMZM2G003076_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 3
gtttgtaactgatttgattattatactatactcgtgtgatgaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG
||||||    || ||| |  | ||   ||  ||    |||  ||      |     || |||  |  |||| | ||||||| |  |||| |||||| | |||||||||||||| |||||||||||||| |||||||||||||| ||||||||||| |||||||||||||| |||||||||||||||
gtttgt----gaattgttgctaatttgatgatca---gattgatgctgcagttcatttaagttatggtggtattaagcaatattctaccgcagATACTTCAACATGTGCTTCTAGATATGCCCGGGCTCGCATTCTTCACGACGTATGCACTTTTGGTGCTCTTCTGGGCCGAGATTTATTATCAG

upper sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G28990.1 (Glycine max), 3'ss of exon 3
------------------------------------------gtttgtaactgatttgattattatactatactcgtgtgatgaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG
                                           |||| | || || | | || | |  |||  ||   | |  |  |  || ||     ||| | || |   | || |      ||       ||||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || ||||||||||||||||||||||||
gtattggagtatagggaatgtggcatttatttttgagttattttttgaacctaatattaataatttgttattttctaattagaatgtgattagactcacttaatgctcac--tctgcatttgcttgtgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTATCAG

upper sequence: GRMZM2G003076_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------gtttgtaac-tgatttgattattatactatactcgtgtgat-gaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG
                                                ||  |||| | |  | | |  | || |||  ||   | |  |||| || |     ||  |  |||| |     ||        |        ||||  | |||||  |  | || ||  ||||  | ||||| ||||| || |||||||||||||| || || |||||||||||||||||||| |||
gtattcgagtatagggaatggaatgtaacatttaatttgagtaattttttcttaacataagattagttgtttattattttctaattacagaatgtggttagactcacttatactcactcactgcgtttgcttatgtttgtagATTGTTCAACACATCTTGCTTGACGTGCCGAGTCTTGCTTTCTTTACAACATATGCACTTTTGGTCCTGTTCTGGGCTGAGATTTATTACCAG

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|211382284|gb|FL169263.1|FL169263
EST:     GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAG                         ATAATACAACATGTGCTTCTGGATATGCC
genomic: GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAGgtttgtaact ... ggtaccacagATAATACAACATGTGCTTCTGGATATGCC
EST: gi|149112231|gb|EE295139.2|EE295139
EST:     GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAG                         ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACA
genomic: GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAGgtttgtaact ... ggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACA
EST: gi|149081139|gb|EE170248.2|EE170248
EST:     GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAG                         ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACA
genomic: GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAGgtttgtaact ... ggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACA
EST: gi|149109085|gb|EE189999.2|EE189999
EST:     GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAG                         ATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACA
genomic: GGTCTGTCGTGTTTGTGCTGCGGCGAAATGTGCAACTTGTAGAGCCTGAGgtttgtaact ... ggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaatttgttggaggtctttagtactaatggtttgaagcaatgtggtaccacagATAATACAACATGTGCTTCTGGATATGCCCGGGCTTGCATTCTTCACGACATATGCACTTTTAGTGCTCTTCTGGGCTGAGATTTATTATCAG
                       tactaat  putative branch site (score: 1)
                  tttagta  TA-rich tract