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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtgacatagcctttttttgaattgtttcacaaagaagcacattgcaatcttttggcattttcattgtattctgtgacttaaattatctgattttttagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGGGTATTGTTGGCAATGTGTTCTAGTGACTTCATCTGCTTTTATGACTGGG

Basic information

species Zea mays
transcript GRMZM2G000645_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 12
ttgtgacatagcctttttttgaattgtttcacaaagaa--gcacattgcaatcttttggcattttc----attgtattctgtgacttaaattatctgattttttagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGGGTATTGTTGGCAATGTGTTCTAGTGACTTCATCTGCTTTTATGACTGGG
       |   |||||| || |    |||  |||||||  ||||||   | ||| |||||||||      |||||||  | ||  || ||| |||  || |   |||||||||||||||| |||||| |||||||||| || ||||||| ||||||  |||| ||||| |||||||| ||||| ||||| ||||||||||||||||
-----taaggaccttttattaatgaatttggcaaagaattgcacatcatattctgttggcatttatcaatattgtatcttctggtttgaatgatccaatatgc-agGAGAAGAAAACTATTCGCCCTACATTTTCAGCTGAACGTATTTTTGGTGGAATATTATTGGCGATGTGTTCCAGTGATTTCATTTGCTTTTATGACTGGG

upper sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 12
---------------------------------ttgtgacatagcctttttttgaattgtttcacaaagaagcacattgcaatcttttgg-cattttcattgtattctgtgacttaaattatctgattttttagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGGGTATTGTTGGCAATGTGTTCTAGTGACTTCATCTGCTTTTATGACTGGG
                                 || ||    | ||| | | |    |  ||   |         ||     || |   |  |  |  |||    ||||   | |  |  |  |   |||| |||| ||||  | |||||||||| | |||||||| |||   || | ||| ||    ||||| || |||||||| ||||| ||||||||||||||||| ||||
gtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcagGAAAAGAGGAGTATCCGCCCTACTTTTTCAGCTGAGAAGATCTTTGGAGGAACCTTGTTAGCTATGTGTTCAAGTGATTTCATCTGCTTTTATGATTGGG
















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|32865242|gb|CF004924.1|CF004924
EST:     CAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAATAAATCGTTTCAG                         GAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGG
genomic: CAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAATAAATCGTTTCAGgtacatggtc ... gattttttagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGG
EST: gi|31353243|gb|CD437600.1|CD437600
EST:     CAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAATAAATCGTTTCAG                         GAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGG
genomic: CAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAATAAATCGTTTCAGgtacatggtc ... gattttttagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatcttttggcattttcattgtattctgtgacttaaattatctgattttttagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTATGGTGGGGTATTGTTGGCAATGTGTTCTAGTGACTTCATCTGCTTTTATGACTGGG
                                         atctgat  putative branch site (score: 4)
                                               tttttt  CT-rich tract
                                acttaaattatctgat  TA-rich tract