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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatctagtatctactactattcatatgcattacttccaatcctcgatgtccttctgttaatgaggttaaagttaaagcatcacaagagatcattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCGGTTGGATGGCTTGATATTGTG

Basic information

species Zea mays
transcript GRMZM2G409430_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G409430_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g54240.2 (Oryza sativa), 3'ss of exon 3
---tatctagta---tctactactattcatatgcattacttccaatcctcgatgtccttctgttaatgaggttaaagttaaagcatcacaagagatcattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCGGTTGGATGGCTTGATATTGTG
   | | ||||    | ||||| | ||||| ||   ||||||||| | | |||    |     |||||||  ||||      | || |  || |||   | | ||| |||||||||| ||||||||||| |||| ||| || |||||||| || ||||||||||||||||||||||||
tgttttgtagtctattttactaatgttcatttgtgctacttccaaccattgattcaatagcagtaatgagtataaat-----gaataatgagtgat-gctctatagGTTGTTGAAGATGATCCTGATTATTGGAGTGGATTATCAGCAGCTCTATCGGTTGGATGGCTTGATATTGTG
















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|101391554|gb|EB817713.1|EB817713
EST:     CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAG                         ATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCG
genomic: CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAGgttggtttca ... cattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCG
EST: gi|71423081|gb|DR805945.1|DR805945
EST:     CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAA-CTCGTTAACTTACAG                         ATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCG
genomic: CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAGgttggtttca ... cattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCG
EST: gi|149010019|gb|EE041829.2|EE041829
EST:     CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAG                         ATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGT
genomic: CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAGgttggtttca ... cattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGT
EST: gi|149015081|gb|EE044836.2|EE044836
EST:     CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAG                         ATTGTTGAAGACGATCCTGATTACTGGAATGG
genomic: CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAGgttggtttca ... cattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGG
EST: gi|78113107|gb|DV531501.1|DV531501
EST:     CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAG                         ATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCG
genomic: CGGTGTACTCTAAGCTCAGCAATTTCCAGAAAAAACTCGTTAACTTACAGgttggtttca ... cattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtccttctgttaatgaggttaaagttaaagcatcacaagagatcattttgtagATTGTTGAAGACGATCCTGATTACTGGAATGGTTTGTCAGCAGCACTTTCGGTTGGATGGCTTGATATTGTG
         tgttaat  putative branch site (score: 3)
                                            tcatttt  putative PPT
                    ttaaagttaaa  TA-rich tract