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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagggagatctaaccctagcccctccagccccacccaccctccctactctctctctccctctctccctaatcgcttccttctcgtatccgtctcccccccgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGGAG

Basic information

species Zea mays
transcript GRMZM2G016296_T06
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G016296_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g37960.2 (Oryza sativa), 3'ss of exon 1
gtgagggagatctaaccctagcccctccagccccacccaccctccctactctctctctc-cctctctccctaatcgcttccttctcgtatccgtctcccccccgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGGAG
      | || | |||||||||||    |||   |  | | |  |   ||  ||| ||| || | |   |||||||         ||| |||| | ||  ||  | || |||| ||||| |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||||
------gtgagcaaaccctagccct---agcgggaatcgctccgctcgctagctcgctcgccccaccttctaatcgg--------cgtttccgccgccttcct-cctcgcagGTACCACAGCCGACGACCTCTTCCCGCTCTTCGACCGCTACGGCAAGGTCGTCGACGTCTTCATCCCGAGGGATCGGAG
















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|87157632|gb|DY402421.1|DY402421
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|18384287|gb|BM417486.1|BM417486
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|9731359|gb|BE510111.1|BE510111
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTAC
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTAC
EST: gi|71766439|gb|DR964376.1|DR964376
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|74235570|gb|DT643484.1|DT643484
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|71421374|gb|DR805394.1|DR805394
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|211456040|gb|FL150302.1|FL150302
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|6022225|gb|AW067153.1|AW067153
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|37417209|gb|CF646257.1|CF646257
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|76280364|gb|DV019932.1|DV019932
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|22489702|gb|BU049625.1|BU049625
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|211456031|gb|FL150293.1|FL150293
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|26558961|gb|CA831196.1|CA831196
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|76936777|gb|DV174882.1|DV174882
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|50336916|gb|CO532042.1|CO532042
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|22545919|gb|BU098278.1|BU098278
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|74232258|gb|DT640172.1|DT640172
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|211456033|gb|FL150295.1|FL150295
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGA-SSCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|211456029|gb|FL150291.1|FL150291
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|211456036|gb|FL150298.1|FL150298
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|91873269|gb|EB403226.1|EB403226
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
EST: gi|211456038|gb|FL150300.1|FL150300
EST:     GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCC                         GCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTCCTCGTCCTCAACATCAGCTTCCgtgagggaga ... cgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccctctctccctaatcgcttccttctcgtatccgtctcccccccgcttcacagGCACCACGGCCGACGACCTCTTCCCGCTCTTCGAGCGCTACGGCAAGGTCGTCGACGTCTTCATCCCGAGGGACCGGAG
          ccctaat  putative branch site (score: 3)
                tcgcttccttctcgta  CT-rich tract