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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggagttctaattcttgttctatgttgcaactaatatacatatagacatgatttttttggggtatatgcattgcaattaatgccccctcccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTTGTCGATGCTCCATTTGTTTTTCAACCAATGTGGCAGGTTGTTAAACCTC

Basic information

species Zea mays
transcript GRMZM2G156218_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G156218_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g21630.1 (Oryza sativa), 3'ss of exon 4
atggagttctaattcttgttctatgttgcaactaatatacatat---agacatgatttt-tttggggtatatgcattgcaattaatgccccctcccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTTGTCGATGCTCCATTTGTTTTTCAACCAATGTGGCAGGTTGTTAAACCTC
    |    | |  |||| |   |    |   | ||  | || |   | | |  ||||| |||   |||      ||  |    |   |||   |  |   ||||| || || || |||||||||||||| |||||||| || |||||||||||||| ||||| || ||||| ||||| || ||||||||| ||||||||||| 
---aaccattgaaacttgctggcttccacgcttgatgcatattttccacaaaccattttgttttctgtactcctgtt-taccctacttccctaactttgttcagATTGATGTGTTCTACTATTACTACCCAAAGCGGCTCGGGCAAGTTCTTTTTGTTGATGCACCGTTTGTGTTTCAGCCGATGTGGCAGCTTGTTAAACCTT
















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|74234556|gb|DT642470.1|DT642470
EST:     TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTG                         ATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
genomic: TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTGgtgagtttgg ... ccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
EST: gi|71332306|gb|DR803091.1|DR803091
EST:     TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTG                         ATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
genomic: TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTGgtgagtttgg ... ccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
EST: gi|71332305|gb|DR803090.1|DR803090
EST:     TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTG                         ATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
genomic: TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTGgtgagtttgg ... ccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
EST: gi|211539211|gb|FL281590.1|FL281590
EST:     TGCGAGGCTTTCGGGTAGAAAATGGTGATCTCCAATTCCTAAAGTTTTTG                         ATGGACGTTTTTTACT
genomic: TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTGgtgagtttgg ... ccattcccagATGGACGTTTTTTACT
EST: gi|74234555|gb|DT642469.1|DT642469
EST:     TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTG                         ATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
genomic: TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTGgtgagtttgg ... ccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTT
EST: gi|211539210|gb|FL281589.1|FL281589
EST:     TGCGAGGCTTTCGGGTAGAAAATGGTGATCTCCAATTCCTAAAGTTTTTG                         ATGGACGTTTTTTACTAT
genomic: TGCGAGGCTTTCGGGTTGAAAATGGTGATCTCCAGTTCCTAAAGTTTTTGgtgagtttgg ... ccattcccagATGGACGTTTTTTACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacatgatttttttggggtatatgcattgcaattaatgccccctcccattcccagATGGACGTTTTTTACTATTACTACCCGAAGCGGCTTGGCCAAGTTCTTTTTGTCGATGCTCCATTTGTTTTTCAACCAATGTGGCAGGTTGTTAAACCTC
                              aattaat  putative branch site (score: 3)
                                    tgccccctcccattcc  CT-rich tract
      attttttt  TA-rich tract