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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATGATGCTTTATCGGGTCACACTTCTGCAAATGTTGAGGAGGCTATTTGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatcatcgcagaattggatgttgcttatcacttttcattcaaaaggaaagtgttgtcttttccgtcctagggacttcaatcccagtgaaatgtttttttttatcttggaattctag

Basic information

species Zea mays
transcript GRMZM2G359735_T03
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 5'ss of exon 3
TTCATGATGCTTTATCGGGTCACACTTCTGCAAATGTTGAGGAGGCTATTTGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatcatcgcagaattggatgttgcttat-cacttttcattcaaaaggaaagtgt-tgtcttttccgt--------cctagggacttcaatcccagtgaaatgtt-tttttttatcttggaattctag
|||||||||| |||||||| ||||||||||| |||||||| |||||| |||||||||| |||||| |||| |||||||||||||| ||||| ||||||||||||| |||||   | |||   |   | |  ||   |||    | |   | |    ||| ||  ||  || |          ||   |||||| | | | | || | || || | ||  ||   ||||  ||
TTCATGATGCCTTATCGGGACACACTTCTGCTAATGTTGAAGAGGCTGTTTGTTATTCAGAACATGGTGCAGTCAAATGTATTGGCATGACAATTGAGACgtaag-atcatttgacaatctaa-actacccatatgcttaggttccttgatggttctgtatgatttccccatgaaacatctttattaacttcagttcta-taaactattgttgtctttcctcaaaattacag

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G36790.1 (Glycine max), 5'ss of exon 3
TTCATGATGCTTTATCGGGTCACACTTCTGCAAATGTTGAGGAGGCTATTTGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatcatcgcagaattggatgtt---gcttatcacttttcattcaaaaggaaagtgttgtcttttccgtcctagggacttcaatcccagtgaaatgtttttttttatcttggaattctag
||||||||||||| || || ||||| ||||| ||||| || |||||| |    || || || ||| | ||   ||| |||||||||||||||||||| |||||||| |  |   |    || | |||        |    |     ||||    |      ||||| || | |  |  ||     ||    | || |  ||                       
TTCATGATGCTTTGTCTGGACACACATCTGCTAATGTGGAAGAGGCTGTGGCATACTCTGAGCATGGGGCAACCAAGTGTATTGGTATGACGATTGAAACgtaagt-tgttaatatttgtgaaagtttggagccttggtctgctggtcaagtacagttacgtgtctgtttctttttttggttaataaaaataatgcatggt-----------------------

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 3
lower sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 3
TTCATGATGCTTTATCGGGTCACACTTCTGCAAATGTTGAGGAGGCTATTTGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatcatcgcagaattggatgttgcttatcacttttcattcaaaaggaaagtgttgtcttttccgtcctagggacttcaatcccagtgaaatgtttttttttatcttggaattctag
|||||||||||||||| || ||||||||||| || ||||| |||||  ||  ||| || |||||||||||    ||||| ||||| ||||| ||||| |||| ||| ||   |||| |    ||  ||   | || | |  |||  |||         ||||||||  | |  |  |  |||  ||    | |||   ||  |  |||||    |||    
TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagt-tcgatgcagta----atcatgtacaaca-tctaaatttgaaat-------ctgtcttttttgcctcaatgttttc--tc----taaaagccttcatagtatctatatattga--

upper sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 3
TTCATGATGCTTTATCGGGTCACACTTCTGCAAATGTTGAGGAGGCTATTTGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatcatcgcagaattggatgttgcttatcacttttcattcaaaaggaaagtgttgtcttttccgtcctag----ggacttcaatcccagtgaaatgtttttttttatcttggaattctag
| ||||||||||| || || ||||||||||| |||||||| |||||| ||   || || || ||||||||  | || |||||||| ||||| ||||| |||| |||                 |  |  ||  |     || || ||| || || |    || | | | |||       | || |   ||  ||| | ||  |    |||    |    ||||  
TACATGATGCTTTGTCAGGACACACTTCTGCCAATGTTGAAGAGGCTGTTGCCTACTCAGAGCATAGTGCAATAAAGTGTATTGGAATGACCATTGAAACgtgagt-----------------tactatttgcc----ctctttgaaatgggaattcacatcatcttcatccctatgctgaacattggtcttagttagat--tcaaatttcctataattttct--

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|149056996|gb|EE156553.2|EE156553
EST:     TGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGAC                         GAGACCTGATTATTGCTTGGGGCCTCATCTGCGCCAGATGCTATCTTATGG
genomic: TGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatca ... ggaattctagGAGACCTGATTATTGCTTGGGGCCTCATCTGCGCCAGATGCTATCTTATGG