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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttcatgaatctctgttgctaagcagcacttatttgtatccacatgcatgagtgcgataggtttggatttctaattgcagtatgcttttggtctttcagATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCCCCAAACGTTTAACTTTCACTGTGCCTTCTTTAGTATTCTCCGCTCTTAAG

Basic information

species Zea mays
transcript GRMZM5G825524_T01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825524_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 14
gcttcatgaatctctgttgctaagcagcacttatttgt--atccacatgcatgagtgc--gataggtttggat-ttctaattgcagtatgctt-ttggtctttcagATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCCCCAAACGTTTAACTTTCACTGTGCCTTCTTTAGTATTCTCCGCTCTTAAG
   | |||  | ||||   ||   ||| ||||| |  |        |||  |||   |  |||   |||| |  | ||||| |||  || ||| ||| |||||||||| ||||| || || ||||||||||||||||||||||| ||||| ||  || ||||||||||||| || ||||||||||| ||||| |||
---ttatg--tttctggaactggacagaacttactgatcaggttgaatgtctgaacacttgatcattttgaaaatgctaatggcaa-atacttgttgatctttcagATATTATGCACCGTTCAGAAGCATATACTTCAGGGAGGTCCCAAGCGGCTACCTTTCACTGTGCCATCCTTAGTATTCTCTGCTCTCAAG
















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|211321313|gb|FL043262.1|FL043262
EST:     CACGTCTCATTCACATGTTGCACAATGATGAGCCTGAAGAGATGTTGAAG                         ATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCCCCAAACGTTTA
genomic: CACGTCTCATTCACATGTTGCACAATGATGAGCCTGAAGAGATGTTGAAGgtaatttgtt ... ggtctttcagATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCCCCAAACGTTTA
EST: gi|31356431|gb|CD440788.1|CD440788
EST:     CACGTCTCATTCACATGTTGCACAATGATGAGCCTGAAGAGATGTTGAAG                         ATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCTCCAAACGTTTA
genomic: CACGTCTCATTCACATGTTGCACAATGATGAGCCTGAAGAGATGTTGAAGgtaatttgtt ... ggtctttcagATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCCCCAAACGTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatgagtgcgataggtttggatttctaattgcagtatgcttttggtctttcagATCTTATGTACTGTACAGAAGCATATACTTCAGGGAGGCCCCAAACGTTTAACTTTCACTGTGCCTTCTTTAGTATTCTCCGCTCTTAAG
                        ttctaat  putative branch site (score: 2)
                                               tctttc  putative PPT
                      atttctaatt  TA-rich tract