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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttgttatataatggcacatttttcatcatattgttattgtttactcataccatgcattgagctgagctgccttttttattcttattttcaag

Basic information

species Zea mays
transcript GRMZM2G171435_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 5'ss of exon 4
GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttgttatataatggcacatttttcatcatattgttattgtttactcataccatgcattgagctgagctgccttttttattcttattttcaag
||||||||||||||||| || || || || ||||| |||||||||||||||||||||||  || ||| |  |||     | |||||||  ||||||||| | |||| |  |   |   | |||||| ||  | |  ||  ||  |||||||||
GCTCGCTACTTCTTCCAGCAGCTTATCTCGGGAGTCAGCTACTGCCATTCAATGgtatttcttattaca--atgattt-tctttcatctgattgttattctgtactaaggcatcgtggtaagctgaactatcctactttctcc-attttcaag

upper sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G01240.1 (Glycine max), 5'ss of exon 4
GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttgttatataatggcacatttttcatcat-attgttattgtttactcataccatgcattgagctgagctgccttttttattcttattt--tcaag
|| |||| ||||||||||||||| || ||||| || |||||||| ||| ||||||||         ||| | |    ||| |||  || | | | |||   |  |   |||    |       ||    ||  | | ||  ||||||||  | |||
GCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCAATGgtac--------ata-agttcggcatctttagtctttacttttacaat--aggtataatgagttgctgacttcaatgtttctatttatcttatttaataaag

upper sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA07G29500.1 (Glycine max), 5'ss of exon 4
GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtat-tagttgttatataatggcacatttttcatcatattgttattgtttactcataccatgcattgagctgagctgccttttttattcttattttcaag
|| |||| ||||||||||||||| || ||||| || |||||||| ||| ||||||||  ||  |     ||  |    | ||  || |   || | |||  |    |  |  | || ||   |   |  |  ||| |||| |            
GCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCAATGgtacataagttcggcatctttagtctttactcttacaataggtataatgagttgctgacttgaat---gtctatttatcttatttaataaag--------

upper sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA02G15330.1 (Glycine max), 5'ss of exon 4
GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattag---ttgttatataatggcacatttttcatcatattgttattgtttactcataccatgcattgag----ctgagctgccttttt-tattcttattttcaag-----
|| |||| ||||||||||||||| || |||||||| |||||||| ||| ||||||||   |   |    | ||   | |     ||| | ||  |  ||  |    |     |  |     ||||    ||||  ||  ||| | ||||  | || |  |      
GCGCGCTTCTTCTTCCAACAACTTATATCAGGAGTTAGCTACTGTCATGCAATGgtacatgaattcaacacatgtagtctttacttttaccagttatttgcttcccagaagaaagaaagcatgagatgtctgacttgaatttctatatttgtcttctttaatgaag

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|211499753|gb|FL295241.1|FL295241
EST:     GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG                         CAAGTACTGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAG
genomic: GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttg ... tattttcaagCAAGTA-TGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAG
EST: gi|60353530|gb|DN220503.1|DN220503
EST:     GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG                         CAAGTATGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAGT
genomic: GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttg ... tattttcaagCAAGTATGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAGT
EST: gi|148932906|gb|EE285698.2|EE285698
EST:     GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG                         CAAGTATGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAGT
genomic: GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttg ... tattttcaagCAAGTATGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAGT
EST: gi|78107855|gb|DV526273.1|DV526273
EST:     GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG                         CAAGTATGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAGT
genomic: GCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATGgtattagttg ... tattttcaagCAAGTATGCCACCGTGATTTGAAGCTGGAGAACACACTTCTAGATGGGAGT