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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgagacctaaccctagcccccgcccccttccctctgtctctaaccgcttccttctcatattcgtcttcaccctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG

Basic information

species Zea mays
transcript GRMZM2G110143_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110143_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g37960.2 (Oryza sativa), 3'ss of exon 1
gtgagcgagacctaaccctagcc---cccgcccccttccct--ctgtctctaaccgcttccttctc---atattcgtcttcaccctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG
|||||| |  |||| |||||||      ||| ||  || ||  ||  |||   || | | ||  ||    | | || |  |  ||||  | |||| ||||| ||||||||||| |||||||||||||| |||| ||||||||||||||||||||||||||||||||| || ||
gtgagcaaaccctagccctagcgggaatcgctccgctcgctagctcgctcgccccaccttctaatcggcgtttccgccgccttcctcctcgcagGTACCACAGCCGACGACCTCTTCCCGCTCTTCGACCGCTACGGCAAGGTCGTCGACGTCTTCATCCCGAGGGATCGGAG
















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|211438564|gb|FL360647.1|FL360647
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGGCAAGGGT
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGG-CAAGG-T
EST: gi|89757947|gb|DY687314.1|DY687314
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|149005364|gb|EE039916.2|EE039916
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|149107293|gb|EE189175.2|EE189175
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|4152004|gb|AI372138.1|AI372138
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211362372|gb|FL342933.1|FL342933
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|76290040|gb|DV029608.1|DV029608
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211277772|gb|FL330870.1|FL330870
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211470092|gb|FL331953.1|FL331953
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|50335677|gb|CO530803.1|CO530803
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211008119|gb|FL365557.1|FL365557
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|78076983|gb|DV505417.1|DV505417
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|50325433|gb|CO520559.1|CO520559
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|74243434|gb|DT651348.1|DT651348
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211347504|gb|FL349161.1|FL349161
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|89756357|gb|DY686407.1|DY686407
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|74237054|gb|DT644968.1|DT644968
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211440857|gb|FL253846.1|FL253846
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|71420359|gb|DR805069.1|DR805069
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|71321797|gb|DR797591.1|DR797591
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211235451|gb|FL353173.1|FL353173
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCYTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|31558121|gb|CD527333.1|CD527333
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211208282|gb|FL335694.1|FL335694
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCCTCTTCGAGCGCTGCGGCAAGGTC
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCG-CTCTTCGAGCGCTGCGGCAAGGTC
EST: gi|211161811|gb|FL316356.1|FL316356
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|74241218|gb|DT649132.1|DT649132
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|30307256|gb|CD001929.1|CD001929
EST:     GGACATCCGCGACACCTTCTCGCTTGGCCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GGACATCCGCGACACCTTCTCGC-T-G-CTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|78105340|gb|DV523758.1|DV523758
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|50328942|gb|CO524068.1|CO524068
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|149101748|gb|EE287365.2|EE287365
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|71325769|gb|DR799565.1|DR799565
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|50328977|gb|CO524103.1|CO524103
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttccctctgtctctaaccgcttccttctcatattcgtcttcaccctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGCAG
           ctctaac  putative branch site (score: 2)
                    cttccttctcatattc  putative PPT
                            tcatatt  TA-rich tract