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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattttgagttatgagcaaagaactgttatgccaatttcacaatgacagttaatactaaattttgttgaaaaaaaactttctgcagCCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACTACCATTGATATAAG

Basic information

species Zea mays
transcript GRMZM2G113619_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113619_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os09g24650.4 (Oryza sativa), 3'ss of exon 3
gtgattttgagttatgagcaaagaactgttatgccaatttcacaatgacagttaatactaaattttgttgaaaaaaaactttctgcagCCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACTACCATTGATATAAG
|||| |||  |||   |  |   | || |  | ||   | ||||    || |    | |      ||||| ||  | | || |||||||| |||||||| || |||||||||||| | ||    ||||||||||||||||||||||| || ||
gtgaatttatgttcaaatgattcatctttccttcc---tccacaggagcaatcctgaatttgacctgttggaatgaca-ttactgcagCCATATGAACACGGTTACACTGCACCTACTAGGCCTCATCCTGATGAAACTACCATTGACATCAG
















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|86471507|gb|DY237877.1|DY237877
EST:     AAAGGAGATGTAACATGTGAAATATGTCATGAG                         CCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACT
genomic: AAAGGAGATGTAACATGTGAAATATGTCATGAGgtgattttga ... ctttctgcagCCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACT
EST: gi|8551597|gb|BE128942.1|BE128942
EST:     AACGATGGTGCAATGAGAAAGGAGATGTAACATGTGAAATATGTCATGAG                         CCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACT
genomic: AACGATGGTGCAATGAGAAAGGAGATGTAACATGTGAAATATGTCATGAGgtgattttga ... ctttctgcagCCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaatttcacaatgacagttaatactaaattttgttgaaaaaaaactttctgcagCCTTATGAACATGGGTACACTGCACCTCCCAGAGGCCATCCTGATGAAACTACCATTGATATAAG
                      tactaaa  putative branch site (score: 1)
                                             ctttctgc  putative PPT
                  ttaatactaaattttg  TA-rich tract