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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taacggctacatttgtatttgtttttattatgtttctttgtatcctattcccttttgatgacagcaaacaatttatcaatttataatttatgtttatcagGTTTCCAGCTATTCAATTTGCAAAAAGATTCACCACTACGAACTCTGGAACCCTCCACTCTGCAAGCACTCTATGAACTCATCTCACTGGTCCATGATGG

Basic information

species Zea mays
transcript GRMZM2G079468_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079468_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g56640.3 (Oryza sativa), 3'ss of exon 11
----------------------------taacggctacatttgtatttgtttttattatgtttctttgtatcctattcccttttgatga-cagcaaacaatttatcaatttataatttatgtttatcagGTTTCCAGCTATTCAATTTGCAAAAA-GATTCACCACTACGAACTCTGGAACCCTCCACTCTGCAAGCACTCTATGAACTCATCTCACTGGTCCATGATGG
                            | ||   || |||| | |    || | || || || |        |||   ||| || ||| ||   ||||  |  | |     | |   |     | ||||||       |||||  |  |||||| ||||||||||| | |||||||||||| ||||| || |||||||| ||                           
aagaaaacaatgatttacatccttcaatttacctttatatttttttacaattctgttgtgattttcacacagatataaacttctgttgatcatttaacagGTCCTGAGCAATTGAAGCAGA---AGCAGGTTAATTCTGATTCATCTGACAAAAAAGATTCACCACTGCAAACTCTGGAACCGTCCACCCTCCAAGCACTTTA---------------------------
















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|166503387|gb|EG043368.1|EG043368
EST:     TCATTTGAAAGATTGCACGGATATTCAGCATATGGCCAAAACATTGACAG                         GTTTCCAGCTATTCAATTTGCAAAAAGATTCACC
genomic: TCATTTGAAAGATTGCACGGATATTCAGCATATGGCCAAAACATTGACAGgtcaatactg ... tgtttatcagGTTTCCAGCTATTCAATTTGCAAAAAGATTCACC
EST: gi|76289272|gb|DV028840.1|DV028840
EST:     AGATTGCACGGATATTCAGCATATGGCCAAAACATTGACAG                         GTTTCCAGCTATTCAATTTGCAAAAAGATTCACCACTACGAACTCTGGAAC
genomic: AGATTGCACGGATATTCAGCATATGGCCAAAACATTGACAGgtcaatactg ... tgtttatcagGTTTCCAGCTATTCAATTTGCAAAAAGATTCACCACTACGAACTCTGGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcccttttgatgacagcaaacaatttatcaatttataatttatgtttatcagGTTTCCAGCTATTCAATTTGCAAAAAGATTCACCACTACGAACTCTGGAACCCTCCACTCTGCAAGCACTCTATGAACTCATCTCACTGGTCCATGATGG
       ttttgat  putative branch site (score: 4)
                    aaacaatttatcaatt  TA-rich tract