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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaggatggcttttgaacaccaacatgacaattgcttgcaagtaggaggttccaccatatattgaacatccattgttcaatttgtctaattgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGTTTTGATTATCGTCTTCATATGGCTGTCCCAGACAAATGGATTGAACTTC

Basic information

species Zea mays
transcript GRMZM2G073054_T02
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 14
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 3'ss of exon 14
-------------------------------------------------------------------aaaaggatggcttttgaacaccaacatgacaattgcttgcaagtaggaggttccac-catatattgaacatccat--tgttcaatttgtctaattgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGTTTTGATTATCGTCTTCATATGGCTGTCCCAGACAAATGGATTGAACTTC
                                                                   | |   | |    |  || |||||  |        ||  ||||    || |   |   || | |||   ||| ||  |  | || | || | |||    |||||| || || ||||| ||||| ||||| ||||||||||||||||| ||||| ||||| || ||| | || |||||  |  | || || ||||| ||| | |
gtaagttttctgattggctaaataaaaaagtgctctacagaaccataagggatacatattgtgtatcatattaaagatagtccaaaaccaaattagtgtgaactgacaagagaaagttagtatatattttttggtgatctatgctaataaaatcgtttcatt----tcagGTTAGTGGTATGCCAACATTCTGTATTCCTGTCCAAGATGGTGGCGTTGGATTTGACTACCGTTTACACATGGCCATAGCTGATAAGTGGATAGAAATGC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 14
lower sequence: AT2G36390.1 (Arabidopsis thaliana), 3'ss of exon 14
aaaaggatggcttttgaacaccaacatgacaattgcttgcaagtaggaggtt-ccaccatatattgaacatccattgttcaatttgtc---taattgtgtt-cagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGTTTTGATTATCGTCTTCATATGGCTGTCCCAGACAAATGGATTGAACTTC
                         | | || ||||      ||      || |     ||| ||  | | |  |       | | ||   | |||  ||| ||||| ||||| |||||  | |||||  | |||||| |||| |||||||| |||||||| || ||||| || ||||| ||  |||| ||||||||||| ||||
-----------------------gtaagtcatttgcgcttttgttcagtattactgaagtatttttgatacctctctccggttctctcaattgatttcgttacagGTTAGCGGGATGCCAGCTTTTTGCGTTCCTGTCGAAGACGGTGGTGTGGGTTTTGACTACCGTCTACACATGGCAGTGGCAGATAAATGGATTGAGCTTC

upper sequence: GRMZM2G073054_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv08s0007g03750.t01 (Vitis vinifera), 3'ss of exon 14
-aaaaggatggcttttgaacaccaacatgacaat-tgcttgcaagtaggaggttccaccatatattgaacatccattgttcaatttgtctaattgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGTTTTGATTATCGTCTTCATATGGCTGTCCCAGACAAATGGATTGAACTTC
 ||||   ||  ||||    |      | | ||| ||  |     |   |         ||   ||     |  ||  | |||||  |   ||| ||  ||||| |||||||||||  |||| ||||| ||||| |||||||||||||| || |||||||||||  | ||||||||  |  | || ||||||||||| ||||
taaaatagtgatttttttctaatgcactaagaatctgtctatggatgctaatccaaggaattggttttctgtttatgatgcaattatttccattttg--cagGTGAGCGGAATGCCAGCATTCTGTATTCCTGTTCAAGATGGTGGTGTGGGATTTGATTATCGCTTACATATGGCCATTGCTGATAAATGGATTGAGCTTC

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|67035192|gb|CO463725.1|CO463725
EST:     ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGAT                         GTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
genomic: ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGATgtaagtgctc ... ttgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
EST: gi|101386689|gb|EB815361.1|EB815361
EST:     ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGAT                         GTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
genomic: ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGATgtaagtgctc ... ttgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
EST: gi|211410788|gb|FL280482.1|FL280482
EST:     ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGAT                         GTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
genomic: ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGATgtaagtgctc ... ttgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
EST: gi|27753880|gb|BM378072.1|BM378072
EST:     ACGATCTTATTTGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGAT                         GTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGACGGTGGTGTTGGT
genomic: ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGATgtaagtgctc ... ttgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
EST: gi|211410789|gb|FL280483.1|FL280483
EST:     ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGTAGAT                         GTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT
genomic: ACGATCTTATTCGTGGGCTTTATCCAGAAGCTGTATCCATTGGCGAAGATgtaagtgctc ... ttgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaggttccaccatatattgaacatccattgttcaatttgtctaattgtgttcagGTCAGCGGAATGCCTACATTTTGTATCCCTGTCCAAGATGGTGGTGTTGGTTTTGATTATCGTCTTCATATGGCTGTCCCAGACAAATGGATTGAACTTC
                                       gtctaat  putative branch site (score: 3)
            atatattgaa  TA-rich tract