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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcatgcatgcgacagcacagcaagattttcgttgcgtgcatcaccggtcaccgcccacggctcaccacgcggacgcgggcatatgcaaatgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCTACAACGACACCGACATCGACGCCTCCTTCGCGGCGTCGCTGCGGGCCAG

Basic information

species Zea mays
transcript GRMZM2G020523_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020523_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g32050.1 (Oryza sativa), 3'ss of exon 3
--tgcatgcatgcgacagc-acagcaagattttcgttgcgtgcatcaccggtcaccgcccacggctcaccacgcggacgcgggcatatgcaaatg-caatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCTACAACGACACCGACATCGACGCCTCCTTCGCGGCGTCGCTGCGGGCCAG
  |  | |   |  | |   | | |   |||       | |  || ||   |     | |  ||  |||      ||      |||    ||  | |  | |||| ||||||||| |||| ||||||||||||   |||| ||||| | ||||||||||||| |||||||||||||| || ||||||||||||||||| ||  |
tttttaagttcgtaataattaaaacttaattagttacacata-attacaccttgtttcacgtggaacacttactagattttaccat---taatcgtctttacagGAGCCCACACCATCGGGCGGGCGCAGTGCGCCAACTTCCGGGACAGGATCTACAACGATACCGACATCGACGCGTCGTTCGCGGCGTCGCTGCGTGCTGG
















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|17932143|gb|BM269103.1|BM269103
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|78110954|gb|DV529352.1|DV529352
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|149090376|gb|EE179684.2|EE179684
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCCGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|211277208|gb|FL063663.1|FL063663
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|78084057|gb|DV512450.1|DV512450
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|76935157|gb|DV174204.1|DV174204
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGACCTGCCGGGGCCCGGATC
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGG-CCCGGATC
EST: gi|89758624|gb|DY687739.1|DY687739
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGGATC
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGG-ATC
EST: gi|76289009|gb|DV028577.1|DV028577
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|91048790|gb|EB159208.1|EB159208
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|76280543|gb|DV020111.1|DV020111
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
EST: gi|76285538|gb|DV025106.1|DV025106
EST:     CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAG                         GTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT
genomic: CGCTTTCTCCAACAAGGGTTTGAGCAGCACCGACATGGTTGCCCTCTCAGgtacacacat ... tgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggtcaccgcccacggctcaccacgcggacgcgggcatatgcaaatgcaatgcagGTGCCCACACCGTCGGCCGGGCGCAGTGCAAGAACTGCCGGGCCCGGATCTACAACGACACCGACATCGACGCCTCCTTCGCGGCGTCGCTGCGGGCCAG
              ggctcac  putative branch site (score: 3)