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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgagacttgagagtttgggttaaatctgtgtttggtttcggtctgctcgttgcaaaccaatctaattactgtccttttctgatgggagtttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAATATGAACCACCAAG

Basic information

species Zea mays
transcript GRMZM2G105425_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G105425_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g54390.1 (Oryza sativa), 3'ss of exon 6
ttgagacttgagagtttgggttaaatctgtgtttggtttcggtctgctcgttgcaaaccaatctaattactgtccttttctgatgggagttt--ttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAATATGAACCACCAAG
    ||  | |   |     | || | ||  |   || |   | |  |  || ||||||  |  || | | | | |  |||||   | ||||  ||| |||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||
-attgatctaactctgcccatgaactttgactgctgtatttttgttgttatttcaaacccttgcaaatgcag-cttactctgaattgtgtttgattcaacagGTGGGGAAAGTTGGAGTTTCATGCACACAGATTCCTTTGCTTGCTCTAGAATATGAACCACCAAG
















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|88752841|gb|DY536982.1|DY536982
EST:     TCCTTGTTGACCCAGAACTTGTTGACTTTCTGATTTCTACCCTTGAAAAG                         GTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
EST: gi|60355226|gb|DN222199.1|DN222199
EST:     TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG                         GTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
EST: gi|60398114|gb|DN230930.1|DN230930
EST:     TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG                         GTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
EST: gi|29577131|gb|CB617243.1|CB617243
EST:     TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG                         GTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
EST: gi|78090612|gb|DV518986.1|DV518986
EST:     TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG                         GTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
EST: gi|76292416|gb|DV031984.1|DV031984
EST:     TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG                         GTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAA
EST: gi|67013256|gb|CO442005.1|CO442005
EST:     TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAG                         GTGGNGGAAAGT-GGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGA
genomic: TCCTTGTTGACCCAGAACTTGTTGACTATCTGATTTCTACCCTTGAAAAGgtggattgtc ... ttttctacagGTGG-GGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcgttgcaaaccaatctaattactgtccttttctgatgggagtttttctacagGTGGGGAAAGTTGGTGTTTCATGCACTCAGATTCCTTTGCTTGCTCTAGAATATGAACCACCAAG
                                ttctgat  putative branch site (score: 3)
                                            tttttctac  putative PPT
              aatctaatta  TA-rich tract