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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgagatggtcttgaacttttgttcaatgttgccctctcttttatatggttttggtataatactgtaatatgaaacaaagaatctgatttgtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCTCATTACTCAATTCGTCACTGGTCAGCATTGAGTGGTGTGGATACTGAAC

Basic information

species Zea mays
transcript GRMZM2G109039_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT3G13340.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------ttgagatggtcttgaacttttgttcaatgttgccctctcttttatatggttttggtataatactgtaa-----tatgaaacaaagaatctgatttgtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCTCATTACTCAATTCGTCACTGGTCAGCATTGAGTGGTGTGGATACTGAAC
                                                       |     || |        ||| ||   | | ||    |  |  | ||    || || || | ||  ||      ||   |  |||||| |   |||       |||| |||||||||||||||||||| || ||||||||| | || ||  | ||  |||      ||   || |  ||  |  | |    ||   |   |||| 
gttttttttttttaatattgagagctcactaacttggactagttgatagtctttctctttctgattggatttatttattgtgtttggcgtgattgtggacataacatttgtctactgctaaaaacctccatctgatcaagaatttttattggtgtcatagCTGAGAAATTTGGTATGGGCAACTTCTAAGCACGACGTGTATCTTATGTCAAATTTTCTGGTTACACATTATTCTTCTCTAACGTCTGGAAAGCATGAAG
















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|211166255|gb|FL395975.1|FL395975
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|211150113|gb|FL386529.1|FL386529
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
EST: gi|60342865|gb|DN209838.1|DN209838
EST:     AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAG                         CTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT
genomic: AGTTTAGACGAAATACTAGATCGGTTAAATCAACTATTCTACATTTTCAGgtgagttaac ... gtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggttttggtataatactgtaatatgaaacaaagaatctgatttgtgcctgcagCTTAGAAATTTGGTATGGGCAACGTCCAAGCACGACATCTACCTAGTATCTCATTACTCAATTCGTCACTGGTCAGCATTGAGTGGTGTGGATACTGAAC
                                    atctgat  putative branch site (score: 4)
          tataatactgtaatat  TA-rich tract