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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatcctttgtcgctaatctgcttagtaagaagtaagagctggagctacgattcattttaattttaaagtttgcaatgatccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGGTGTGGCTCTATTTGTTGGATGGCTG

Basic information

species Zea mays
transcript GRMZM2G021589_T05
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G021589_T05 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g60120.3 (Oryza sativa), 3'ss of exon 6
gtaatatcctttgtcgctaa-tctgcttagtaagaagtaagagctggagctacgattcattttaattttaaagtttgcaatgatcc-ctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGGTGTGGCTCTATTTGTTGGATGGCTG
||||| |||  |     ||| |||| |||    ||         || ||||     ||||| | | || |         ||| ||  || |||||||||||| ||||||||| |||||||    || |||||||||||||||||  ||||||| ||||| |||||||||
gtaatgtccagttctattaaatctgtttatcctga---------tgaagcttttgctcattctgaattca-------tgatggtctgctgcagGTATTTGGAGGTTGCTGGTAAGAAGACGCATAACCTTTACTTATACAATGGATTGGCTCTGTTTGTCGGATGGCTG
















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|76290363|gb|DV029931.1|DV029931
EST:     CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATG                         GTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACNATGG
genomic: CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATGgtaatatcct ... atccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
EST: gi|22520700|gb|BU079511.1|BU079511
EST:     CTCATGGTCCTCTTCCCCGAAATCCCGACTCCCTTTGTGAACCTCAGATG                         GTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
genomic: CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATGgtaatatcct ... atccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
EST: gi|32944348|gb|CF049167.1|CF049167
EST:     CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATG                         GTATTTGGACGTTGCTGGTCAGAAGACTTGCGATCTTTACTTATACAATGG
genomic: CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATGgtaatatcct ... atccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
EST: gi|13557777|gb|BG549133.1|BG549133
EST:     CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATG                         GTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
genomic: CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATGgtaatatcct ... atccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
EST: gi|89761412|gb|DY689435.1|DY689435
EST:     CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATG                         GTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
genomic: CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATGgtaatatcct ... atccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
EST: gi|16380079|gb|BI993301.1|BI993301
EST:     CTCATGGTCCTCTTCACCGGAATCACGGCTCCCTTTGTGAACCTCAGATG                         GTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG
genomic: CTCATGGTCCTCTTCACCGAAATCACGACTCCCTTTGTGAACCTCAGATGgtaatatcct ... atccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagagctggagctacgattcattttaattttaaagtttgcaatgatccctacagGTATTTGGACGTTGCTGGTCAGAAGACTTGCAATCTTTACTTATACAATGGTGTGGCTCTATTTGTTGGATGGCTG
                      ttttaat  putative branch site (score: 3)
                                              tccctac  putative PPT
                 attcattttaatttta  TA-rich tract