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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaactcacatatcatgtatattgttacttgattagtaatttttatctgttatttttatgtttcttcacctgattcaatattttcttatgatcattcagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTCAAGAGTGCACTTGTAGATATTAGGCCAACAACTGATGGTCGG

Basic information

species Zea mays
transcript GRMZM5G870572_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G870572_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os08g25060.1 (Oryza sativa), 3'ss of exon 6
gtaaaactcacata-tcatgtatattgttacttgattagtaatttttatctgttatttttatgtttcttcacctgattcaatattttcttatgatcatt--cagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTCAAGAGTGC---ACTTGTAGATATTAGGCCAACAACTGATGGTCGG
|||||| ||||  | ||| | | | | |   |          |  | || || |  ||| || | |  |||    | | |  || |  |||||| | ||  |||||||||||||| || |||||||||||  |||||||||||| |||||||||||| |||||    || |  ||| |||||||| |  |||||||||||
gtaaaattcactcactcaagcaaaatatgtttct--------tcctgatatgcttgtttaatttattctcatgaaact-atcatgtctttatgaacttttacagAATTTACTTGAGGACGAAGCAAATAAAGGATCAAAACAAAGGCCAGGTTTCAAAAGTGCCATGCTAGCTGATGTTAGGCCATCGGCTGATGGTCGG
















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|148959670|gb|EC905590.2|EC905590
EST:     TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAG                         AATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
genomic: TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAGgtaaaactca ... gatcattcagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
EST: gi|211184532|gb|FL153187.1|FL153187
EST:     TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAG                         AATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
genomic: TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAGgtaaaactca ... gatcattcagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
EST: gi|31356392|gb|CD440749.1|CD440749
EST:     TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAG                         AATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
genomic: TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAGgtaaaactca ... gatcattcagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
EST: gi|13150541|gb|BG320863.1|BG320863
EST:     TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAG                         AATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC
genomic: TTGTTCTTGGAAATATTCTGCAAGAATCTGAATTTTGGGCAACAAGAAAGgtaaaactca ... gatcattcagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgttatttttatgtttcttcacctgattcaatattttcttatgatcattcagAATTTACTTGATGATGAAGCAAATAAGAGATCAAAACAAAAGCCAGGTTTCAAGAGTGCACTTGTAGATATTAGGCCAACAACTGATGGTCGG
                       acctgat  putative branch site (score: 4)
     ttatttttatgtttct  TA-rich tract