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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtgtcttcgatatttattggcatgtttattttttcaagtcaacaaaaaaagtcttttgaagttcacattttcttacaagaactatttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG

Basic information

species Zea mays
transcript GRMZM5G835235_T04
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G835235_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g14860.3 (Oryza sativa), 3'ss of exon 7
--------gtatggtgtcttcgatatttattggcatgtttattttttcaagtcaacaaaaaaagtcttttgaagttcacattttcttacaagaactat---ttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
         |    | |||| |    || | || | |||| || |||     || |    |   | || |  |  ||    |  |||||||    | |   ||| ||||||| ||||||| |||||||||||||| |||||||| || ||||||||||||
gtaagcggctggattttctttgcacattttggggaagtttgttgttt---accaccctggactctattgtcgaagtcggtatgccttacaattgttttctgttcgacagCCTCTGTTTCCTGGTGAAAGTGGTGTAGACCAACTTGTGGAAATCATCAAG
















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|213187425|gb|FM190443.1|FM190443
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|33093876|gb|CF053870.1|CF053870
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|213187001|gb|FM192338.1|FM192338
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|20803001|gb|BQ294051.1|BQ294051
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|32830913|gb|CD970591.1|CD970591
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|32865481|gb|CF005163.1|CF005163
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGGGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|32865499|gb|CF005181.1|CF005181
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|32830394|gb|CD970072.1|CD970072
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGTCAT                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCGAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|32831124|gb|CD970802.1|CD970802
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
EST: gi|26456580|gb|CA828163.1|CA828163
EST:     TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAG                         CCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
genomic: TTGACATTTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTATGCTAGGGCAGgtatggtgtc ... atttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaacaaaaaaagtcttttgaagttcacattttcttacaagaactatttcaacagCCTTTGTTTCCAGGTGAAAGTGGTGTGGACCAACTCGTCGAAATCATCAAG
                               ttcttac  putative branch site (score: 2)
                                           ctatttc  putative PPT
     aaaaaaagtctttt  TA-rich tract