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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctctcgagttatagtttgtattgccctgcattttaacaacgatcttgtttaccagttatgttctggttgttttttattacattgttattgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGGTACACTTCAGTGGCCTGTTTGATATGATGTAACAT

Basic information

species Zea mays
transcript GRMZM2G166345_T03
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G166345_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g60660.1 (Oryza sativa), 3'ss of exon 10
-ttctctcgagttatagtttgtattgccctgcattttaacaacgatcttgtttaccagt---tatgttctggttgttttttattacattgttattgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGGTACACTTCAGTGGCCTGTTTGATATGATGTAACAT
 ||   | | ||| | ||  ||  ||| | |  | | || ||  |   ||||||  | |    |  ||   |||   ||  ||||| || |  || |  | |||||||||||||||||| ||||||||||| ||||| ||||| || ||||| |||||||| || |||                                    
atttgattgtgtt-tggt--gtcctgcaccgtttgtgaagaaaaaaaatgtttataactgtccacctttcagttcagttaaattac-ttatccttcacatatagGTTTGATGGGAAGCCAGAAGATGTTCTTAATCCGAAGAAGAAACAGCTCGACAAGATCACACCG------------------------------------
















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|86469719|gb|DY236089.1|DY236089
EST:     TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGG                         GTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
genomic: TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGGgtcagtatat ... tgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
EST: gi|24934254|gb|CA452472.1|CA452472
EST:     TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGG                         GTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
genomic: TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGGgtcagtatat ... tgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
EST: gi|32944796|gb|CF049615.1|CF049615
EST:     TTGATTCCTCCAGAAGGAGCCAAAATTGGAGAACGCATTTCATTTGCTGG                         GTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
genomic: TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGGgtcagtatat ... tgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
EST: gi|56462002|gb|CK986300.1|CK986300
EST:     TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGG                         GTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA
genomic: TTGATTCCTCCAGAAGGAGCCAAGATTGGAGAACGCATTTCATTTGCTGGgtcagtatat ... tgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtttaccagttatgttctggttgttttttattacattgttattgatgtgtagGTTTGATGGGAAGCCTGAAGATGTTCTAAATCCAAAGAAAAAGCAGCTGGACAAGATTACCCCGGTACACTTCAGTGGCCTGTTTGATATGATGTAACAT
                                          tattgat  putative branch site (score: 3)
                       ttgttttttattacat  TA-rich tract