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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_T01
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
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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|211362372|gb|FL342933.1|FL342933
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211440859|gb|FL253848.1|FL253848
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211008119|gb|FL365557.1|FL365557
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211235451|gb|FL353173.1|FL353173
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCYTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211161811|gb|FL316356.1|FL316356
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211470092|gb|FL331953.1|FL331953
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|78105340|gb|DV523758.1|DV523758
EST:     GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCC                         GAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
genomic: GCCGGACATCCGCGACACCTTCTCGCTGCTCGTCCTCAACATCAGCTTCCgtgagcgaga ... ctctgctcagGAACCACGGCCGACGACCTTTTCCCGCTCTTCGAGCGCTGCGGCAAGGTCG
EST: gi|211440857|gb|FL253846.1|FL253846
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