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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatgataattttcttttatttatatttacttgttgagatggttgaaattttgacttcttttccccactttttttctttgtatgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG

Basic information

species Zea mays
transcript GRMZM2G158489_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158489_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g09000.1 (Oryza sativa), 3'ss of exon 5
gtatgttatgataattttcttttatttatatttacttgttgagatggttgaaattttgacttcttttccccactttttttctttgtatgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG
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gtatgatgcgataaatttgtgcaagtcatgttctcttgttgagatactgaaagccttaaccatttg-----gtgttctggttttctatgc----agGATGAGAAGATTGAATGTTGCCGCTTTTCTAGGGATGGCATGAAACCATTCCTGTTTTGCACCGTTGCAAAAG
















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|76010774|gb|DT937944.1|DT937944
EST:     GTCAATTTGACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: GTCAATTTGACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
EST: gi|32912764|gb|CF017576.1|CF017576
EST:     TATGGAAGATAGATGAGGGCGCACCACTGGTCAATTTGACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: TATGGAAGATAGATGAGGGCGCACCACTGGTCAATTTGACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
EST: gi|78115282|gb|DV533670.1|DV533670
EST:     GACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: GACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
EST: gi|76287602|gb|DV027170.1|DV027170
EST:     TGGTCAATTTGACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: TGGTCAATTTGACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
EST: gi|32834098|gb|CD973776.1|CD973776
EST:     TATGGAAGATAGATGAGGGCGCACCACTGGTCAATTTGACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: TATGGAAGATAGATGAGGGCGCACCACTGGTCAATTTGACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
EST: gi|86470686|gb|DY237056.1|DY237056
EST:     GACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: GACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
EST: gi|74236583|gb|DT644497.1|DT644497
EST:     GTCAATTTGACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTTCTAGGGATGGCATGAAACCGTT
genomic: GTCAATTTGACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGC-TTTTCTAGGGATGGCATGAAACCGTT
EST: gi|22490777|gb|BU050700.1|BU050700
EST:     TATGGAAGATAGATGAGGTCGCACCACTGGTCAATTTGACTCGATCCTCG                         GATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC
genomic: TATGGAAGATAGATGAGGGCGCACCACTGGTCAATTTGACTCGATCCTCGgtatgttatg ... atgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatggttgaaattttgacttcttttccccactttttttctttgtatgcctacagGATGAGAAGATCGAGTGCTGCCGCTTTTCTAGGGATGGCATGAAACCGTTCCTGTTTTGCACTGTTGCAAAAG
            ttttgac  putative branch site (score: 3)
            ttttgacttcttttcc  CT-rich tract
                                tttttttctttgtat  TA-rich tract