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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaatctggtaggctcattttcctataattattacaagtcttattgctattcttgctttgcgtatgcacttcctgatttgctcacattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC

Basic information

species Zea mays
transcript GRMZM2G165418_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 7
--tttgaatctggtaggctcattttcctataattattacaagtcttattgctattcttgctttgc--gtatgcacttcctgatttgctcacattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC
  | |  || |   ||      |    | | ||  |||||   |||| ||  |||| ||   ||    ||||   | | |||| |  |    || ||||||||||||| |||||||||||||||||||| ||| | ||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||
attattgatgtttaagatgacctggaatctgatctttaca---cttactgtaattcatgtcctggtaatatgttgtgcatgatgtaatt-tgttgatatttcagAGGTCATTACATGTGCGGAGTTCCACCCAACTCATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCTGCGACAATCAGC

upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
--tttgaatctggtaggctcattttcctataattattacaagtcttattgctattcttgctttgcgtatgcacttcctgatttgctc---acattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC
  | | | ||| || |      | || || ||||     ||   || |   |||  ||  ||||    | || ||     ||  | |   | |||  |||| ||||||| || ||||  || || || || ||  | |||||||||||| |||| ||||| |||||||||||||| || || ||| ||||  |||| || |||||
gctgttagtcttgtggatcaggtatcata-aattg----aacctttttaaatatattttttttgtagcttcagttgagctttgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC

upper sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G42800.2 (Glycine max), 3'ss of exon 7
--tttgaatctggtaggctcattttcctataattattacaagtcttattgctattcttgctttgcgtatgcacttcctgatttgctcacattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC
    ||||    | |   ||   ||||| |  |  ||      || | | | ||| |     |   |       || |||       | |||  |||| ||||||| || ||||  || || || || ||  | |||||||||||| |||| ||||| |||||||||||||| ||||| ||| ||||  |||| ||||||||
aaagtgaaggaagaataatctgcttccttttttgttttgcccactcagttccattttaaaagtat-tggttgaatcttgaccc-taaatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGC

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|31352864|gb|CD437221.1|CD437221
EST:     GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAG                         AGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
genomic: GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAGgtaattccac ... catatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
EST: gi|211384024|gb|FL015619.1|FL015619
EST:     GAGNTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAG                         AGGTGATTACNTGNGCGGAGTTCCATCCATCCCATTGNAATACACTGGCCT
genomic: GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAGgtaattccac ... catatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
EST: gi|24934206|gb|CA452424.1|CA452424
EST:     GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAG                         AGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
genomic: GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAGgtaattccac ... catatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
EST: gi|211386654|gb|FL015627.1|FL015627
EST:     GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAG                         AGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
genomic: GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAGgtaattccac ... catatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
EST: gi|211386649|gb|FL015622.1|FL015622
EST:     GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAG                         AGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACNCTGGCCT
genomic: GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAGgtaattccac ... catatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
EST: gi|67025874|gb|CO454623.1|CO454623
EST:     GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAG                         AGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT
genomic: GAGCTTTAACATTGTTGATGTGAAGCCTACAAACATGGAAGATCTAACAGgtaattccac ... catatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctattcttgctttgcgtatgcacttcctgatttgctcacattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC
                                   tgctcac  putative branch site (score: 2)
                                          attcatattt  TA-rich tract