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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttactattttgaactgctagaacagtatttactcttttcggtgtccttattatatttgttggtacagttctatgtgttcatgtagtgcaccaggtgaaaggtgctcaacgagtattatttaattattaaccactggagtatgccattatgtagGTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAAGCTCGTGCTCAATCAGCAAA

Basic information

species Zea mays
transcript GRMZM2G024607_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024607_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g67000.1 (Oryza sativa), 3'ss of exon 6
--------gtgagttactattttgaactgctagaacagtattt--actcttttcggtgtccttattata-------tttgttggtacagttctatgtgttcatgtagtgcaccag-gtgaaaggtgctcaacgagtattatttaattattaaccac----tggagtatgccattatgtagGTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAAGCTCGTGCTCAATCAGCAAA
         | || | | | ||| ||||||| | |   |||||  || || | |  | |   |||||||       | | ||  |   |    || | |     ||| |||  || ||| |  || |  |     || |||| || || |  | |     |||| ||||||||  ||||||||||||| ||||||||||||||||| ||||| ||||| |||||  | ||||| |||||||||||||| ||
gtgagcttattagcttcaagtttcaactgctgggatgctattttcacactctgcattatatgtattataacgaatttatatttatctggcctcatatatg-gcatagagcaatagagtgtatagtacctatttcatactattcaactaattgctatcatgtggaatatgccatcctgtagGTTCTTGAAAGCAAGATAGCAGAGGCTAAGCAAAAAAAAGATACCTTAAAAGCCCGTGCTCAATCAGCCAA
















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|71305010|gb|DR788643.1|DR788643
EST:     AGCTTGATCAGCAGAAGGGTGTAGTTGAAAATCTGATTTCAAATACCCGG                         GTTCTTGAGAGNCA-GATAGCAGAGGC
genomic: AGCTTGATCAGCAGAAGGGTGTAGTTGAAAATCTGATTTCAAATACCCGGgtgagttact ... cattatgtagGTTCTTGAGAG-CAAGATAGCAGAGGC
EST: gi|71305008|gb|DR788642.1|DR788642
EST:     TTTCAAATACCCGG                         GTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAA
genomic: TTTCAAATACCCGGgtgagttact ... cattatgtagGTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAA
EST: gi|94474385|gb|EB703343.1|EB703343
EST:     TTCAAATACCCGG                         GTTCTTGGGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAA
genomic: TTCAAATACCCGGgtgagttact ... cattatgtagGTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAA
EST: gi|18171522|gb|BM341362.1|BM341362
EST:     AGCTTGATCAGCAGAAGGGTGTAGTTGAAAATCTGATTTCAAATACCCGG                         GTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAA
genomic: AGCTTGATCAGCAGAAGGGTGTAGTTGAAAATCTGATTTCAAATACCCGGgtgagttact ... cattatgtagGTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtgctcaacgagtattatttaattattaaccactggagtatgccattatgtagGTTCTTGAGAGCAAGATAGCAGAGGCCAAGCAGAAAAAGGATACGCTTAAAGCTCGTGCTCAATCAGCAAA
                         tattaac  putative branch site (score: 1)
        aacgagtattatttaa  TA-rich tract