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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcatccagtattgttatctgcagattgctcagtagatttctttgtaattaacagcagatcttgttatttggtgctaactgcacgtttatctgctgcagCGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACTGTGTCTCTATGTATTTGGCTTCTGCTTTGTGTACATTGTCAAGATTAAAGACG

Basic information

species Zea mays
transcript GRMZM2G179002_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g33450.2 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------------ttgcatccagtattgttatctgcagattgctcagtagatttctttg--taattaacagcagatc-----ttgttattt-----------------ggtgctaactgcacgtttatctgctgcagCGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACTGTGTCTCTATGTATTTGGCTTCTGCTTTGTGTACATTGTCAAGATTAAAGACG
                                                                 |    | | || ||||  |||| | |   ||   | |||||  |    ||  ||  || ||||      ||  || ||                  | ||||| |      ||||||||||||||| ||||| || |||||||| |||||||||||||| || ||||| ||||| |||||||| ||||||||||| |  ||||||||||| || || | ||| |
gtaagtatcttgatgtgttggaaggtttaagatatccttattgcaattagcttgaagatttgatatcatgtgcggtgttgtggtctgtatacctcttgttggattttctatattagatattagtagattgttagttactactttaaagttttaacaagtcagcgctaattatcaacttatctgctgcagCGAAATTACCGATTCTTCTACATGTTTGTATTCTCAACCACATTGCTGTGCCTCTATGTCTTTGGCTTCTGTTGGGTGTACATTGTTAAAATAAGAGATG

upper sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
ttgcatccagtattgttatctgcagattgctcagtag--atttctttgtaattaacagcagatct-tgttatttggtgctaactgcacgttta--tctgctgcagCGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACTGTGTCTCTATGTATTTGGCTTCTGCTTTGTGTACATTGTCAAGATTAAAGACG
    ||    | || |  ||||   | |  |||||    ||||  |    ||||  |    || |   |||| |  | |||| |||  |      | |  ||||||| ||||||||||||||||  |||||||| ||||| || ||  |||||||| | ||||| ||||  || ||||  || || ||||| |  ||||  |   
----attattttttttgttctgtttacttttcagttatcatttgctatgcattattattgaatatacattatgta-tcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
















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|148992698|gb|EE033657.2|EE033657
EST:     GGAGCGCTTTGATCACCACTGCCCCTGGGGTTGGGCAGTGCATAGGATTG                         CGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACT
genomic: GGAGCGCTTTGATCACCACTGCCCTTGGG-TTGGGCAGTGCATAGGATTGgtaagtttga ... tctgctgcagCGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACT
EST: gi|148947125|gb|EC892437.2|EC892437
EST:     TGGAGCGCTTTGATCACCACTGCCCTTGGGTTGGGCAGTGCATAGGATTG                         CGCAATTATCGGTTCTTCTATATGTT
genomic: TGGAGCGCTTTGATCACCACTGCCCTTGGGTTGGGCAGTGCATAGGATTGgtaagtttga ... tctgctgcagCGCAATTATCGGTTCTTCTATATGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaattaacagcagatcttgttatttggtgctaactgcacgtttatctgctgcagCGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACTGTGTCTCTATGTATTTGGCTTCTGCTTTGTGTACATTGTCAAGATTAAAGACG
                            tgctaac  putative branch site (score: 1)
                                         tttatct  putative PPT
                 ttgttattt  TA-rich tract