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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgcgcgcttcaatttttccggctggcttgcgagaggagcgagcgttacgttgctgttttttttccctttctaacttttgctgtctgctgtgtgcgcgctcgcgtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGACCCCTTCGTGGCGTGCAACGAGT

Basic information

species Zea mays
transcript GRMZM2G025231_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025231_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g24190.1 (Oryza sativa), 3'ss of exon 1
gtacgcgcgcgcttcaatttttccggctggcttgcgagaggagcgagcgttacgttgctgttttttttccctttctaacttttgctgtctgctgtgtgcgcgctcgcgtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGACCCCTTCGTGGCGTGCAACGAGT
      |  ||  | |    | ||| |||  ||              | ||   ||  |  |||||||    |   |  ||| | | | |  | ||| || |  |||   || ||||||||||||||  ||| |||||||||||||||||||||||||||||||||||||||| || ||   ||||| ||| || || |||||||||||||||||||
------gtacgtgtgagcggtgccg-ctgattttt--------tcttctttttttttttaattttttttgggtctga--tttcgtttttttttttgttcgtggccgc---cgcgcagCCGAAGCCGCTCCGGCAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTGGGGCTCAACCCCGACGGCGAGCCGTTCGTGGCGTGCAACGAGT
















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|149001186|gb|EE038454.2|EE038454
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211344801|gb|FL219951.1|FL219951
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211344804|gb|FL219954.1|FL219954
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|71309263|gb|DR790918.1|DR790918
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211344807|gb|FL219957.1|FL219957
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211342416|gb|FL219947.1|FL219947
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|148963234|gb|EE014221.2|EE014221
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCCGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211344805|gb|FL219955.1|FL219955
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211342409|gb|FL219940.1|FL219940
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211344802|gb|FL219952.1|FL219952
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
EST: gi|211342413|gb|FL219944.1|FL219944
EST:     CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGG                         CCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC
genomic: CCCACAACCGCAACGAGCTCGTCGTCATCCGCCGCGACGGCGATCCCGGGgtacgcgcgc ... gtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttccctttctaacttttgctgtctgctgtgtgcgcgctcgcgtgcgtgcagCCGAAGCCGCCGCGGGAGCAGAACGGGCAGGTGTGCCAGATTTGCGGCGACGACGTCGGCCTTGCCCCCGGCGGGGACCCCTTCGTGGCGTGCAACGAGT
          ttctaac  putative branch site (score: 1)
             taactttt  TA-rich tract