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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgacatggctaaccagcaaatttattctccacattgcagctatattgctttgtcatcctaatgaaatctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCTATAAAATATTCAATTGTTGAACGACCTGAGAAAATAGATGAAATCATGT

Basic information

species Zea mays
transcript GRMZM2G168629_T05
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168629_T01 (Zea mays), 3'ss of exon 23
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 23
gtgtgacatggc-taaccagcaaatttattctccacatt-------gcagctatat------------tgctttg--tcatcctaatgaaatctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCTATAAAATATTCAATTGTTGAACGACCTGAGAAAATAGATGAAATCATGT
  |||| ||||  | || | | ||  |||| ||  ||||        | |  || |            |  ||||  |||| |        | | | | |||| |||||| ||||| || || ||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| ||||  |||||||||||||| ||||
--gtgaaatgggattactatctaaactattttcttcattttgttctactgtcatttaatgattagaggtcttttggttcattccttgcgtttttttttgtagGAACGCACATCTAGTCCTGCTGCAAACACAAGAGCTACAGTTGCCATTGCTATAAAATATTCAATTGTTGAACGGCCTGGAAAAATAGATGAAATTATGT

upper sequence: GRMZM2G168629_T01 (Zea mays), 3'ss of exon 23
lower sequence: AT2G02560.2 (Arabidopsis thaliana), 3'ss of exon 23
gtgtgacatggctaaccagcaaatttattctccacattgcagctatattgctttgtcatccta-atgaaatct---ctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCTATAAAATATTCAATTGTTGAACGACCTGAGAAAATAGATGAAATCATGT
||     |  ||||   | |||  | | | |   ||||      || |    || |  |   | ||| | |||    | | |||||  | ||  | |||||||| ||   |||  | || || |||| || |||| | ||||||||| | || ||||||||||||||| ||||||||||||| |
gtagagaacagctacagaacaatctcactttttgcattttgctcatttgctgttatgcttagagatgcattctgaattttatagGTCAGGACAACGAGCCCAGCTGCTTTTACCCGTGCAACTGTTGTTACTGCTGTGAAATATTCAGTAGTGGAACGACCTGAGAAATTAGATGAAATCATCT
















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|91877710|gb|EB407667.1|EB407667
EST:     TAGGAAAAATTTCTCTAATTGAACCNNNNNNNCTAGTCCCTGCTTTGGAG                         GTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
genomic: TAGGAAAAATTTCTCTAATTGAACCAAAAAAACTAGTCCCTGCTTTGGAGgtgtgacatg ... ctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
EST: gi|16746077|gb|BM032507.1|BM032507
EST:     TAGGAAAAATTTCTCTAATTGAACCAAAAAACCTAGTCCCTGCTTTGGAG                         GTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
genomic: TAGGAAAAATTTCTCTAATTGAACCAAAAAAACTAGTCCCTGCTTTGGAGgtgtgacatg ... ctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
EST: gi|67019143|gb|CO447892.1|CO447892
EST:     TAGGAAAAATT-CTCTAATTGAACCNNNNNNNCTAGTCCCTGCTTTGGAG                         -TACGCACGTCTAGCCCAGCAGCANATACAA
genomic: TAGGAAAAATTTCTCTAATTGAACCAAAAAAACTAGTCCCTGCTTTGGAGgtgtgacatg ... ctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAA
EST: gi|31354241|gb|CD438598.1|CD438598
EST:     TAGGAAAAATTTCTCTAATTGAACCNNNNNNNCTAGTCCCTGCTTTGGAG                         GTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCT
genomic: TAGGAAAAATTTCTCTAATTGAACCAAAAAAACTAGTCCCTGCTTTGGAGgtgtgacatg ... ctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCT
EST: gi|89761370|gb|DY689409.1|DY689409
EST:     TAGGAAAAATTTCTCTAATTGAACCNNNNNNNCTAGTCCCTGCTTTGGAG                         GTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
genomic: TAGGAAAAATTTCTCTAATTGAACCAAAAAAACTAGTCCCTGCTTTGGAGgtgtgacatg ... ctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
EST: gi|78119497|gb|DV537881.1|DV537881
EST:     TAGGAAAAATTTCTCTAATTGAACCNNNNNNNCTAGTCCCTGCTTTGGAG                         GTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT
genomic: TAGGAAAAATTTCTCTAATTGAACCAAAAAAACTAGTCCCTGCTTTGGAGgtgtgacatg ... ctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattctccacattgcagctatattgctttgtcatcctaatgaaatctctctctagGTACGCACGTCTAGCCCAGCAGCAAATACAAGAGCTACGGTTGCTATTGCTATAAAATATTCAATTGTTGAACGACCTGAGAAAATAGATGAAATCATGT
                                 tcctaat  putative branch site (score: 2)
                                            tctctctct  putative PPT
                                    taatgaaat  TA-rich tract