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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtattttgtttctttacctgacggacataacctatcagttgtcattgtcttggttgagtatttaaagctattataatctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG

Basic information

species Zea mays
transcript GRMZM2G159295_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g53110.1 (Oryza sativa), 3'ss of exon 6
gtttgtattttgtttctttacctgacggacataacctatcagttgtcattgtcttggttgagtatttaaagctattataatctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
   | | |||||||| | | | | ||          | ||  |||||||| ||| | |    || | |||| |  |  ||| |||||||||| ||||||||| |||||||||||||||||||||||||||||
--gtcttttttgtttttctgcatcacaa--------tgtc--ttgtcattctctggctgagatactaaaagtttcttaaatttgcagGCATACTTCATGCAAATTGATGGCACATTAAACAAATTGACAACG

upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G34430.1 (Glycine max), 3'ss of exon 6
gttt--gtattttgtttcttta--cctgacggacataacctatcagttgtcattgtcttggttgag-tatttaaagctattataa---tctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
|||     | |||   ||||||    || | || |  |||      ||   ||    |   || |  |    || | | |  |     | ||||||| |||||||||||| |||| ||||||||||| |||||| | || 
gttacaaaacttttcatctttaattttgccagatactaccggattatttaaatgaattgcattaaactgaacaatgttgtgctttgcctttgcagGCCTATTTCATGCAAATTGACGGCACATTAAATAAATTGGCCACA

upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G31600.1 (Glycine max), 3'ss of exon 6
--------gtttgtattttgtttctttacctgacggacataacct-atcagttgtc---attgtcttgg-ttgagtatttaaagctattataatctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
          || |  | | |   ||| ||  || || |  |||  || ||||      ||||  ||    |||  |  |   | | ||    | ||||||| |||||||||||| |||| ||||||||||| |||||| | || 
gttacaaaacttttcatctttaattttgcc--acagatactaccggattagttaaatgaattgcattaaactgaacaactgttgttctttgcctttgcagGCCTATTTCATGCAAATTGACGGCACATTAAATAAATTGGCCACA

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|88748706|gb|DY532847.1|DY532847
EST:     CTGTGCATGGAAATGAGAATGATGTTGAAGAGCTAGAGATGTTGCTGGAG                         GCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
genomic: CTGTGCATGGAAATGAGAATGATGTTGAAGAGCTAGAGATGTTGCTGGAGgtttgtattt ... taatctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
EST: gi|76291165|gb|DV030733.1|DV030733
EST:     CTGTGCATGGAAATGAGAATGATGTTGAAGAGCTAGAGATGTTGCTGGAG                         GCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
genomic: CTGTGCATGGAAATGAGAATGATGTTGAAGAGCTAGAGATGTTGCTGGAGgtttgtattt ... taatctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacctatcagttgtcattgtcttggttgagtatttaaagctattataatctgcagGCATATTTCATGCAAGTTGATGGCACATTAAACAAATTGACAACG
 acataac  putative branch site (score: 3)
                            agtatttaaagctatt  TA-rich tract