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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagattggaaatattcctttggttttatttataatcatcttgtagacatagcgtggctgtattttcttaaaaaaaattatttgtctgcctttggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGACACTTGTAACAGTTAAAAAGGCCCATCTTGGTGTTGTGACTACACTGTCC

Basic information

species Zea mays
transcript GRMZM2G041642_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G041642_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g39650.1 (Oryza sativa), 3'ss of exon 7
gtgag--attggaaatattcctttggttttatttataatcat-cttgtagacatagcgtggctgtattttcttaaaaaaaattatttgtctgcctttg-gtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGACACTTGTAACAGTTAAAAAGGCCCATCTTGGTGTTGTGACTACACTGTCC
|||||  | |  ||  |     ||  |    ||||| || |  ||| | || ||   |||| || |  ||||  | ||   | |||||| ||| |||   | || |||||||| || ||||||||| |  |  || |    |||||| | |||||| | |||||||||||||||||||| ||||||||  || | |||||| || | 
gtgagcaaattcaatcaacagcttactgcattttatgattaagcttattgagattatgtggatgcaccttct--agaagcctaatttgtttgcatttccatatccagTGGAACTATTGAAGGAAGCATTATTGTACTAAGTTCAAAAAATATGCGGTCGCTTGTAACAGTTAAAAAGGCACATCTTGGCATTATTACTACATTGGCA
















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|78021609|gb|DV489996.1|DV489996
EST:     GAGGCAATTTCAGCTTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTCGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
EST: gi|32823302|gb|CD963024.1|CD963024
EST:     GAGGCAATTTCAGCTTTTGCGGTGTCGCCCAATGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
EST: gi|24769540|gb|CA404669.1|CA404669
EST:     GAGGCAATTTCAGCTTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTCGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
EST: gi|5895643|gb|AW036889.1|AW036889
EST:     GAGGCAATTTCAGCTTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTCGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
EST: gi|5791284|gb|AI978076.1|AI978076
EST:     GAGGCAATTTCAGCTTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTCGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
EST: gi|71759938|gb|DR957875.1|DR957875
EST:     GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC
EST: gi|6194538|gb|AW146642.1|AW146642
EST:     GAGGCAATTTCAGCTTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAAT                         TGGAACAATCGAAGGAAGCGTCGTCATAGTCGACTCAAAAGACATGCGGAC
genomic: GAGGCAATTTCAGCGTTTGCGGTGTCGCCCAACGGTGCTCTCCTTGCAATgtgagattgg ... tggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagcgtggctgtattttcttaaaaaaaattatttgtctgcctttggtttctagTGGAACAATCGAAGGAAGCGTGGTCATAGTCGACTCAAAAGACATGCGGACACTTGTAACAGTTAAAAAGGCCCATCTTGGTGTTGTGACTACACTGTCC
                                     tctgccttt  CT-rich tract
           tgtattttcttaaaaa  TA-rich tract