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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgtaatattttgtgccagaaacatattttctcatctttctggttcctcttatttttttactatttgatgactgatcattgtttctaatgatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGGCTCAATTACTTTGATGAATTAGAAAAT

Basic information

species Zea mays
transcript GRMZM5G825854_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825854_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g34970.1 (Oryza sativa), 3'ss of exon 6
aatgtaatatt-ttgtgccagaaacatattttctcatctttctggttcctcttatttttttactatttgatgactgatcattgtttctaatgatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGGCTCAATTACTTTGATGAATTAGAAAAT
 || || | |  || ||||| |    |  |  ||| ||  | |  ||  |    | |||     | | ||  |    |  |   ||| |||| |  |||||||| | ||||||||||||||||| ||||||||||| ||||||||||| ||| | || |||||||||||||| ||||||
tatatattctcattttgccatattgctggtccctcttccgtttttttaatgaagtgtttcagtcaatggactatcatttctaaattcgaatg-taatgcagTTGTTGGAGAAACAAAGGCTGATTGAGTTTGCAGAAGCACTTCGAAGTAGGTTGAACTACTTTGATGAATTGGAAAAT

upper sequence: GRMZM5G825854_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv11s0016g00350.t01 (Vitis vinifera), 3'ss of exon 7
aatgtaatattttgtgccagaaacatattttctcatctttctggttcctcttatttttttactat-ttgatgactgatcattgtttctaatgatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGGCTCAATTACTTTGATGAATTAGAAAAT
|    |||   ||  |        |  || ||| ||  |||| |    | | ||| |   || || |  ||  || |      ||| |  |     ||||| | || ||||||||||| ||||| ||||||||||| |||||||| ||||  ||||| |||||||| || || || |||
ataacaattagtttagtttagtttagtttatcttattcttcttgaagatat-attctcacacaatatcaatctcttacatggttttttgttcccattgcagCTAGTAGAGAAACAAAGACTGATTGAGTTTGCAGAAGCACTTCGCAGCAAACTCAACTACTTTGACGAGTTGGAGAAT
















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|93281267|gb|EB673531.1|EB673531
EST:     CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTT                         TTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
genomic: CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTTgtatgtctgt ... gatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
EST: gi|149104241|gb|EE289677.2|EE289677
EST:     CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTT                         TTGGTTGAGAAACAAAGGCTGATCGAGTTTG
genomic: CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTTgtatgtctgt ... gatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTG
EST: gi|211066409|gb|FL073783.1|FL073783
EST:     CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTT                         TTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
genomic: CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTTgtatgtctgt ... gatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
EST: gi|148952057|gb|EC897846.2|EC897846
EST:     CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTT                         TTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
genomic: CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTTgtatgtctgt ... gatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
EST: gi|91872014|gb|EB401971.1|EB401971
EST:     CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTT                         TTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
genomic: CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTTgtatgtctgt ... gatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
EST: gi|32859413|gb|CD999094.1|CD999094
EST:     CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTT                         TTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG
genomic: CAAGCGTTGCCACGAAGACAAAAACTTTGCATGATGCTTGCGACCAACTTgtatgtctgt ... gatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctcttatttttttactatttgatgactgatcattgtttctaatgatggtgcagTTGGTTGAGAAACAAAGGCTGATCGAGTTTGCAGAGGCACTTCGAAGCAGGCTCAATTACTTTGATGAATTAGAAAAT
                                      ttctaat  putative branch site (score: 2)
     ttatttttttactatt  TA-rich tract