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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatttttatctggcgtggatcttgttcctatttttgatgacttgatatcttgaagcaaacaatgcagaaacttatatcatatattgacacgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTATTTACTGAGCTGGCCTTTCGCTACAG

Basic information

species Zea mays
transcript GRMZM2G112865_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G112865_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g62210.2 (Oryza sativa), 3'ss of exon 3
----ttatttttatctggcgtggatcttgttcctatttttgatgacttgatatcttgaagcaaacaatgcagaaacttatatcatatattgacacgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTATTTACTGAGCTGGCCTTTCGCTACAG--------
     | |||| |||||||  | || |||     |||| |  | | |  || |||| |||  |    | ||||||||||| |  | ||||  ||  |  | ||||| ||   | ||||||||||||||||| |||| ||||||||||| |||||||| ||||||||||||||||| ||||| ||||  || ||||         
aaacgtcttttgatctggctggaatgttgcattgatttatt-taagtctat-tcttaaaggtattcgtccagaaacttatct--tttatttgcataaattatagGGCACATTGGATGCAGCAAGACGTGCTTCTGCTTTTGTTCGGGGAGATGATGTTGTTCATAAGCTATTTACAGAGCTAGCCTACCGTTACAAGTAAAACT

upper sequence: GRMZM2G112865_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g62210.1 (Oryza sativa), 3'ss of exon 3
----ttatttttatctggcgtggatcttgttcctatttttgatgacttgatatcttgaagcaaacaatgcagaaacttatatcatatattgacacgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTATTTACTGAGCTGGCCTTTCGCTACAG
     | |||| |||||||  | || |||     |||| |  | | |  || |||| |||  |    | ||||||||||| |  | ||||  ||  |  | ||||| ||   | ||||||||||||||||| |||| ||||||||||| |||||||| ||||||||||||||||| ||||| ||||  || |||| 
aaacgtcttttgatctggctggaatgttgcattgatttatt-taagtctat-tcttaaaggtattcgtccagaaacttatct--tttatttgcataaattatagGGCACATTGGATGCAGCAAGACGTGCTTCTGCTTTTGTTCGGGGAGATGATGTTGTTCATAAGCTATTTACAGAGCTAGCCTACCGTTACAA

upper sequence: GRMZM2G112865_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g38580.1 (Oryza sativa), 3'ss of exon 3
ttatttttatctggcgtggatcttgttcctatttttgatgacttgatat-cttgaagc--aaacaatgcagaaacttatatcatatattgacacgata-tgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTATTTACTGAGCTGGCCTTTCGCTACAG
  ||  | | ||      |  ||||       | || ||  ||| || | |||   |   || |  | |  |   | | || | | | |   |  ||  | |||||||| |   ||||||||||||||||  | |||||||||||||||||  |||| ||||| ||| |||| || || || ||||  ||||||| 
--atcatgagctaaat--gtccttgccagatatattaatctcttaatgttcttactgtcaaagccgttcctatgttaacattagaaagttctattattctatagGGTACGCTTGATGCAGCAAGACGTGCCTCAGCCTTTGTTCGGGGTGACAATGTTGTTCACAAGTTATTCACAGAACTCGCCTACCGCTACAA

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|37393499|gb|CF634015.1|CF634015
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|60353121|gb|DN220094.1|DN220094
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|110963515|gb|EE183415.1|EE183415
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|22490485|gb|BU050408.1|BU050408
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|21987795|gb|BQ779323.1|BQ779323
EST:     GGAT-AGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGG-GATGAT
genomic: GGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|60356193|gb|DN223166.1|DN223166
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|60397912|gb|DN230728.1|DN230728
EST:     GGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: GGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|87151864|gb|DY396653.1|DY396653
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|21987566|gb|BQ779094.1|BQ779094
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGCGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|18965108|gb|BM661397.1|BM661397
EST:     GGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: GGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|19058032|gb|BM736699.1|BM736699
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|32909297|gb|CF014109.1|CF014109
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|50337603|gb|CO532729.1|CO532729
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|22545985|gb|BU098344.1|BU098344
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
EST: gi|148963908|gb|EE015020.2|EE015020
EST:     CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAG                         GGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT
genomic: CGAAGGAGGTTCGGCGGAAGGCGGATCAGATGGTGCAGCTAGGGAAGGAGgtaattggaa ... cgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcttgaagcaaacaatgcagaaacttatatcatatattgacacgatatgtagGGTACTCAGCATGCAGCAAGACGTGCTGCTGCCTTTGTTCGGGGTGATGATGTCGTTCATAAGCTATTTACTGAGCTGGCCTTTCGCTACAG
                                     tattgac  putative branch site (score: 2)
                       aaacttatatcatata  TA-rich tract