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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttaagttttgttttgctatttatgcataataaagaaaaaacagtggaacgccatactgattcttattgcttcgtgctgcttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCTTCTGATCACAA

Basic information

species Zea mays
transcript GRMZM2G090647_T04
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G090647_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g37832.1 (Oryza sativa), 3'ss of exon 7
gtacttaagttttgttttgctatttatgcataataaagaaaaaacagtggaacgccatactgattctt--attgcttcgtgctgcttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCTTCTGATCACAA
||||  |||  ||| ||    ||||| |  |||      |||   | | | |   | | ||||| |||  ||| |    | ||||   |  ||||||||||||||||| || || |||||||| |||||| | ||||| ||||| |||||||||||
gtaccaaagccttgctt----attta-gtttaa------aaaggtaattggatatcgtgctgatgctttgatttcaaaattctgccaattgcagAACAAAAGGGATGTTGTGGCCACAATTGTGTATGAAATAATGCCTAATCCATCTGATCACAA

upper sequence: GRMZM2G090647_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g37832.2 (Oryza sativa), 3'ss of exon 7
gtacttaagttttgttttgctatttatgcataataaagaaaaaacagtggaacgccatactgattctt--attgcttcgtgctgcttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCTTCTGATCACAA--------------------------------------
||||  |||  ||| ||    ||||| |  |||      |||   | | | |   | | ||||| |||  ||| |    | ||||   |  ||||||||||||||||| || || |||||||| |||||| | ||||| ||||| |||||||||||                                      
gtaccaaagccttgctt----attta-gtttaa------aaaggtaattggatatcgtgctgatgctttgatttcaaaattctgccaattgcagAACAAAAGGGATGTTGTGGCCACAATTGTGTATGAAATAATGCCTAATCCATCTGATCACAAGTAAGTTATTATGATTTGAAACTACTCATGTCATTTAT
















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|47962698|gb|CN845407.1|CN845407
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|5686889|gb|AI939803.1|AI939803
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|71770109|gb|DR968046.1|DR968046
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|30705964|gb|CD058985.1|CD058985
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|76918843|gb|DV167481.1|DV167481
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|5018209|gb|AI714402.1|AI714402
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|211242536|gb|FL481660.1|FL481660
EST:     GTGATACAACTAAAATTTMTTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAARGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|211164192|gb|FL363087.1|FL363087
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCM-TCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT
EST: gi|60336843|gb|DN203816.1|DN203816
EST:     GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAG                         AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCG
genomic: GTGATACAACTAAAATTTATTACATTGGACTACGTGGTGAAGCCACTCAGgtacttaagt ... cttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaaaacagtggaacgccatactgattcttattgcttcgtgctgcttgtcccagAACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCTTCTGATCACAA
                    tactgat  putative branch site (score: 2)
                                             cttgtccc  putative PPT
                         attcttatt  TA-rich tract