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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaacagtgttttgcacggctatatgcacgatagcacggccttaaatttgtgatgggaggaaggctgcatgaaagctaatatattgtctgttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCCATGCACGTCCTGAACTAC

Basic information

species Zea mays
transcript GRMZM2G017254_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017254_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g08270.3 (Oryza sativa), 3'ss of exon 5
aaaacagtgttttgcacggctatatgcacgatagcacggccttaaatttgtgatgggaggaaggctgcatgaaagctaatatattgtctgttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCCATGCACGTCCTGAACTAC
     |||  ||   ||  |    |  |       | |    ||  ||| || |       |         |   |||||  |||   ||   | | |||||| ||||| |||||  ||||||||||  | |||||||| ||| ||||||| || || |||||||||||| | |||||||| || |||| ||||||||| 
ggtgtagtagttcctacaacatgctctatctgtttaagattctatctttctgtttcttaccatatgatgaaagttctaatccattccatggctttaccagATTTCAAATGCCAGAATTTCAAGGCCTGGTTCAGGAGCAAAATACCCCAATTGACCTGTGTGGTCTTCACGTAAGCGAGGCGATACACGCCCTGAACTAT
















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|16925619|gb|BM078687.1|BM078687
EST:     CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAG                         ATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
genomic: CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAGgtcagatata ... ttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
EST: gi|91053863|gb|EB164281.1|EB164281
EST:     CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAG                         ATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
genomic: CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAGgtcagatata ... ttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
EST: gi|211384728|gb|FL390642.1|FL390642
EST:     CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAG                         ATTCCAAATACCAGAACTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
genomic: CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAGgtcagatata ... ttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
EST: gi|149108501|gb|EE189684.2|EE189684
EST:     CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAG                         ATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT
genomic: CAAAGCAGGTTGGCTCAGGAGAAAGCTAGAGAAACAACATACCGACAAAGgtcagatata ... ttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtgatgggaggaaggctgcatgaaagctaatatattgtctgttctcaacagATTCCAAATACCAGAGCTTCAAGGCCTCATCCAGGAGCAGAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCCATGCACGTCCTGAACTAC
                            agctaat  putative branch site (score: 3)
                                         tctgttctc  putative PPT
                          aaagctaatatatt  TA-rich tract