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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctactcagcatgtcaactgatttgtattctactatagtatcttggttcgtttccttttatgaaactgactgattagtgatttgtgtgtgatttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGCAATTTCACCTGAACTTCAGACCATTGTTGGTGAGACTGCCATGTCAAGA

Basic information

species Zea mays
transcript GRMZM2G124502_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124502_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g56980.1 (Oryza sativa), 3'ss of exon 1
ctactcagcatgtcaactgatttgtattctactatagtatcttggttcgtttccttttatg-aaactgactgattagtgatttgtgtgtgatttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGCAATTTCACCTGAACTTCAGACCATTGTTGGTGAGACTGCCATGTCAAGA
    |     ||||   ||  |||||   |  |  |      |||    |   | |  ||| ||||||| || ||  | || | ||| | ||||| |||||| |||| ||||| ||| ||||||| ||||||||||||||||||||||| ||||| ||||||||||||||||| |||||||||||||||| ||||||||||
tagattcatgtgtcc-ttggattgtacattgattcaaacctgtggaatttactcatgcatgcaaactgattggtttatcatatctgtattatttcctctagTGCTTCAAAGCGGAAACGAGGTGGGCCTGGTGGTTTAAATAAAGTTTGTGCAATCTCACCTGAACTTCAGACTATTGTTGGTGAGACTGTCATGTCAAGA

upper sequence: GRMZM2G124502_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv19s0090g01460.t01 (Vitis vinifera), 3'ss of exon 1
-------ctactcagcatgtcaactgatttgtattctactatag-tatcttggttcgtttccttttatgaaactgactgattagtgatttgtgtgtgatttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGCAATTTCACCTGAACTTCAGACCATTGTTGGTGAGACTGCCATGTCAAGA
        ||     ||   |   |  | ||| || |  |||   |||     |  | | | |    | |   |  |   ||  |||||| | | ||   |  || ||  ||   |    || ||||||||| || || ||| |||| ||||||||||   ||||||||||||||||||||||||||||  || | ||  ||      
agagtgtgtatctgtcacaaccttttttatgtgttattatatgcctattgcattctgatgcttggcctaatgtttccatgttcatgatttttttctgcagTGCTCGAG--CTGGAACTAAAAGAAGAGGTGGTCCAGGGGGTCTAAACAAAGTTTGCGGTGTTTCACCTGAACTTCAGACCATTGTTGGCCAGCCAGCGCTG------
















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|74239586|gb|DT647500.1|DT647500
EST:     ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAG                         TTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
genomic: ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAGgtgagttgtc ... tttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
EST: gi|78111193|gb|DV529590.1|DV529590
EST:     ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAG                         TTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
genomic: ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAGgtgagttgtc ... tttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
EST: gi|71422220|gb|DR805652.1|DR805652
EST:     ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAG                         TTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
genomic: ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAGgtgagttgtc ... tttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
EST: gi|71440370|gb|DR821420.1|DR821420
EST:     ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAG                         TTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC
genomic: ACTGCTTCCCCCACCGCTGCACCGCAGGTCGCCGGCGACAACAAGGAAAGgtgagttgtc ... tttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgtttccttttatgaaactgactgattagtgatttgtgtgtgatttcttctagTTCTTCTAAGCGAAAAAGAGGTGGACCTGGTGGTTTAAATAAAGTTTGCGCAATTTCACCTGAACTTCAGACCATTGTTGGTGAGACTGCCATGTCAAGA
                                             tttcttct  CT-rich tract
         ttttatgaaa  TA-rich tract