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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttttccattcaaaaatgtgttgaattattttgttaattgcttttcatactcagatacacaatgatctttctaatgtgttttttctttaaatattcagGGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGTATAATGTGCTAGATAGCTGTGGGAGTGTCAGAATCTCATTCTCTCCGAG

Basic information

species Zea mays
transcript GRMZM2G026900_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G026900_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g33230.1 (Oryza sativa), 3'ss of exon 5
tttttttccattcaaaaatgtgttgaattattttgttaattgcttttcatactcagatacacaatgatctttctaatgtgttttttctttaaatattcagGGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGTATAATGTGCTAGATAGCTGTGGGAGTGTCAGAATCTCATTCTCTCCGAG
||||| ||        | | ||||  | | || | |   |  | ||    | |   || | ||       |  | |  | | || | | | |||  | |||||||||||| |||||||| || |||||||||||||||||| |||||  ||||||||| ||||| |||||||||||||| ||| | ||||| ||   |||
tttttatcttaagcttattttgttacagttttgtatgtgtcccattattgattttcatgcccagatccaatattgacttttgttatttgtcaatgattagGGAATTGTAAGTATGGTGTCGACCTTGCCAGGCAGCTCATAGCTTCTACGTATAATGTTCTAGACAGCTGTGGGAGTGTGAGAGTTTCATTTTCCAGGAG
















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|76014611|gb|DT941781.1|DT941781
EST:     CGCCCCTTTGCCTAAGCCGTTGCTAATTGTCAGCATTGGGGGCCCCACCA                         GGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGT
genomic: CGCCCCTTTGCCTAAGCCGTTGCTAATTGTCAGCATTGGGGGCCCCACCAgtaatactct ... aaatattcagGGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGT
EST: gi|71329061|gb|DR801238.1|DR801238
EST:     CGCCCCTTTGCCTAAGCCGTTGCTAATTGTCAGCATTGGGGGCCCCACCA                         GGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGT
genomic: CGCCCCTTTGCCTAAGCCGTTGCTAATTGTCAGCATTGGGGGCCCCACCAgtaatactct ... aaatattcagGGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGT
EST: gi|32929458|gb|CF034270.1|CF034270
EST:     CGCCCCTTTGCCTAAGCCGTTGCTAATTGTCAGCATTGGGGGCCCCACCA                         GGAATTGTAAATATGGTGTAGATCTTAG-CAGGCAGCTCCTAACTTCTCTG
genomic: CGCCCCTTTGCCTAAGCCGTTGCTAATTGTCAGCATTGGGGGCCCCACCAgtaatactct ... aaatattcagGGAATTGTAAATATGGTGTAGATCTT-GCCAGGCAGCTCATAACTTCTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatactcagatacacaatgatctttctaatgtgttttttctttaaatattcagGGAATTGTAAATATGGTGTAGATCTTGCCAGGCAGCTCATAACTTCTCTGTATAATGTGCTAGATAGCTGTGGGAGTGTCAGAATCTCATTCTCTCCGAG
                         ttctaat  putative branch site (score: 2)
                                   ttttttcttta  putative PPT
                        tttctaatgtgttttt  TA-rich tract