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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtgttctcatttcatgtttctgtttaatctaggatcttgtttatttattttatgaaaatttcgtggttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGAGGTACATGTAAATTCCATCACCCAGAACTTGGTTTTCTTACAGAGACGC

Basic information

species Zea mays
transcript GRMZM2G475017_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G475017_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g15350.1 (Oryza sativa), 3'ss of exon 4
gtgggtgttctcatttcat--gtttctgtttaatctaggatcttgtttatttattttatga--aaatttcgtggttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGAGGTACATGTAAATTCCATCACCCAGAACTTGGTTTTCTTACAGAGACGC
||| |     |||||  ||   ||  | || ||     |  ||   || || ||||| |||  ||||||| |      || ||||||| || || ||| | || ||  | |||||||| |||||||||||||||  ||||||||||||||||||||||||| |||||    || ||||||| |
gtgagataattcattcgatcaattcttattaaagtagtggcctgcctttttcattttctgatgaaatttcttat---gtgcagGGTGAGAAAGATTGTACCTACTATGTCAAAACTGGCCATTGCAAATTTGGATCTACATGTAAATTCCATCACCCAGAAATTGGTGGAGTTTCAGAGACAC

upper sequence: GRMZM2G475017_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA13G28820.1 (Glycine max), 3'ss of exon 4
-------------------------------------gtgggtgttctcatttcatgtttc--tgtttaatctaggatcttgtttatttattttatgaaaatttcgtggt-taatg-tagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGAGGTACATGTAAATTCCATCACCCAGAACTTGGTTTTCTTACAGAGACGC
                                     |   |  ||   || |  |||||   | | | |||  |||  |  |||  |     | ||||  |||     | | ||   ||||||| ||||| ||||| |||||  ||||||| ||||| ||||| ||||| |  || |||||||||||||| ||||  | || |    |   |    | |
gtctgtatcactttttgtatttactacataaggctaggcatgcttttgaatgttctgttttgttttctgatcatggaaatattttgatccgagtttgaatgtttataaatatgataacagGGTGAGAAGGAGTGTTCCTATTATGTGAAAACAGGACAATGCAAGTTTGGTGCAACTTGTAAATTCCATCATCCAGTTCCTGCTGGCATCCAAATTCCAC

upper sequence: GRMZM2G475017_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G37980.1 (Glycine max), 3'ss of exon 4
-----------------------------------gtgggtgttctca--tttcatgtttctgtttaatctaggatcttgtttatttatttta---tgaaaatttcgtggttaatg-tagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGAGGTACATGTAAATTCCATCACCCAGAACTTGGTTTTCTTACAGAGACGC
                                   ||| |  || | |  |||  |||  || |||     | |||  ||    |||  || |   |  || |||||||  | ||   ||||| | || || ||||| |||||| ||||||||||||| ||||| ||||| |  || |||||||||||||| ||| | | ||      |   ||      
gtctgtatcagtttgtgtttactgcgtaaaattatgtgtgctttgtgaattttggtgtcactcttttcctaacgatgatggaagttttgttcaaacttgaattttcgtgcatgataacagGGTCAGAAAGAGTGTTCCTATTACGTGAAAACTGGACAGTGCAAGTTTGGTGCAACTTGTAAATTCCATCATCCACAGCCTGCAGGCGTCCAAGTTCTAG

upper sequence: GRMZM2G475017_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA15G10230.1 (Glycine max), 3'ss of exon 4
------------------------------------------------gtgggtgttctcatttcatgtttctgtttaatctaggatcttgttt--atttattttatgaaaatttcgtggttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGAGGTACATGTAAATTCCATCACCCAGAACTTGGTTTTCTTACAGAGACGC-
                                                |||  |||||   |||  | ||||||        | ||| ||| |   | ||    | |  | |  |  |  | |    ||||||| ||||| ||||| |||||  ||||||| ||||| ||||| ||||| |  || |||||||||||||| ||||  | ||  |  | | || |  |   
gtctgtgtcacttttttgaatttacttacataaggctaagagtgttttgtgaatgttca-gttttgt-tttctgacagtggaaagattttgatctgaatttgaatgtttataaatgataatgataacagGGTGAGAAGGAGTGTTCCTATTATGTGAAAACAGGACAATGCAAGTTTGGTGCAACTTGTAAATTCCATCATCCAGTTCCTG-CTGGCGTCCAAATTCCAG

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|31910491|gb|CD651450.1|CD651450
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|78116119|gb|DV534507.1|DV534507
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|91876225|gb|EB406182.1|EB406182
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|94474028|gb|EB702986.1|EB702986
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTG
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTG
EST: gi|76921023|gb|DV168420.1|DV168420
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|71775279|gb|DR973157.1|DR973157
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|211121575|gb|FL034194.1|FL034194
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCCTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|76289471|gb|DV029039.1|DV029039
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
EST: gi|50338849|gb|CO533975.1|CO533975
EST:     GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTG                         GGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA
genomic: GTGGTTTTGTACCTGTCGCTTTAAACAACAGTGGATTCCCTCTACGTCTGgtgggtgttc ... gttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttaatctaggatcttgtttatttattttatgaaaatttcgtggttaatgtagGGTGAAAAGGAATGTTCGTATTACATGAAAACTGGACATTGCAAATTTGGAGGTACATGTAAATTCCATCACCCAGAACTTGGTTTTCTTACAGAGACGC
                                            ggttaat  putative branch site (score: 4)
             atcttgtttatttatt  TA-rich tract