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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtcggttcaactctctgcaagtttgtttagccccgcatttctcacatggaacttagtttgataaagtcagggtttcttcagcatgatctcaggatcccccccaaaagcatcgctgtcagtaaccaaacacttgaatgacttccgaacgttttccttatcttggtttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCGAGGACCACGGGCGCTCCACAGAACCACTG

Basic information

species Zea mays
transcript GRMZM2G090087_T02
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G090087_T03 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os05g45960.1 (Oryza sativa), 3'ss of exon 13
gcaagtcggttcaactctctgcaagtttgtttagccccgcatttctcacatggaacttagtttgataaagtcagggtttcttcagcatgatctcaggatcccccccaaaagcatcgctgtcagtaaccaaacacttgaat------gacttccgaacgttttc--cttatcttggtttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCGAGGACCACGGGCGCTCCACAGAACCACTG
                                                                                     |||  | | || |   | | |  |    | ||   ||  ||   |||||||||||      | ||     || | | |  |  |   |  |   ||||||||| ||||||||| |||| |||||||||||||| || ||||| || ||||| ||||| || || |||||||||||||||||
-------------------------------------------------------------------------------------catcttgt-agcaatactcacgcagcttttgccaccaacaattgaacacttgaatccaatcggctcagtgacttatccaacacacactcatcggttttcagGAAGTACTTGGGCGATCAGTTAACGGGACAACATATGCCGGCATCCGAGCAAGGACAACTGGTGCTCCACAGAACCACTG
















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|18383619|gb|BM416819.1|BM416819
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|211120257|gb|FL200678.1|FL200678
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|67020094|gb|CO448843.1|CO448843
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|27769727|gb|CB042906.1|CB042906
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|6827469|gb|AW331112.1|AW331112
EST:     ATGCGCATCTGACGGCTGCAGTTGTCTCGAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|18659076|gb|BM500142.1|BM500142
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAAT
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAAT
EST: gi|27576018|gb|CA998712.1|CA998712
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|30088118|gb|CB886323.1|CB886323
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|24773212|gb|CA408466.1|CA408466
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAAT
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAAT
EST: gi|29544968|gb|CB605146.1|CB605146
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|28422820|gb|CB251998.1|CB251998
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|4966653|gb|AI691509.1|AI691509
EST:     TGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: TGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|67025872|gb|CO454621.1|CO454621
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|67023454|gb|CO452203.1|CO452203
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCG-AATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|37380563|gb|CF627102.1|CF627102
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|27521928|gb|CA989034.1|CA989034
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|30306480|gb|CD001153.1|CD001153
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|60340281|gb|DN207254.1|DN207254
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|67018698|gb|CO447447.1|CO447447
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|211507628|gb|FL212141.1|FL212141
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|67014372|gb|CO443121.1|CO443121
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|211301793|gb|FL438947.1|FL438947
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTMAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|60349947|gb|DN216920.1|DN216920
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|211342162|gb|FL434432.1|FL434432
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|71440457|gb|DR821507.1|DR821507
EST:     CTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: CTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
EST: gi|211507626|gb|FL212139.1|FL212139
EST:     ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAG                         GATSTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG
genomic: ATGCGCATCTGACAGCTGCAGTTGTCTCAAACGACCCGCTATTCCTGCAGgcaagtcggt ... ttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaccaaacacttgaatgacttccgaacgttttccttatcttggtttattttcagGATGTACTTGGGAGATCCGTTAACGGGACAACCTACGCCGGAATTCGAGCGAGGACCACGGGCGCTCCACAGAACCACTG
 cagtaac  putative branch site (score: 2)
                                            tttattttc  putative PPT
                                            tttattttca  TA-rich tract