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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaataatgagaccaggctgcgcgcgcattcgctccatgcggctttccctgactcgcgccttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGAGAAGACGAGACCCACGTGTCGACCCGAGTCATGGGCACGCAGGGCTACG

Basic information

species Zea mays
transcript GRMZM2G110968_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110968_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S207_2V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------gtaaaataatgagaccaggctgcgcgcgcatt-cgctccatgcggctttccctgactcgcgccttcatt--------cagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGAGAAGACGAGACCCACGTGTCGACCCGAGTCATGGGCACGCAGGGCTACG
                    ||||  | || | |    | |      |||||   |  | |      | | ||| |    | |||  ||        ||||| ||||| || |||||||| ||||||||||||||||| | |||||||| || |||| | || ||||| || || || || ||||||||  | ||||| |
cagtaacgagttgcgtggaagtaacgttattataaagcgttattgttgcattatacctcttagtttgtcctctgtcctcagacttgtttatggttgtcagGATTACACAGCCAAGCTGTCTGATTTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATG

upper sequence: GRMZM2G110968_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ19239 (Selaginella moellendorffii), 3'ss of exon 4
gtaaaataatgagaccaggctgcgcgcgcattcgctccatgcggctttccc-tgactcgc-gccttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGAGAAGACGAGACCCACGTGTCGACCCGAGTCATGGGCACGCAGGGCTACG
|| |    | || |      ||      || ||           |   ||| |||||||     | |  ||||||||||||||| ||||| ||||||||||| || ||||| | ||| || | || |||| |||| || || || || ||| ||||||| ||  | |||||||
gtgagtagaagataaagaaatgaagaaacaatcttggagactaacaaacccgtgactcgttaaatcctctcagGACTACACGGCCAAGCTCTCGGATTTCGGCCTCGCGAAAGATGGCCCGGAAGGAGACAAGACGCATGTTTCCACACGAATCATGGGAACTTACGGCTACG

upper sequence: GRMZM2G110968_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ22709 (Selaginella moellendorffii), 3'ss of exon 4
gtaaaataatgagaccaggctgcgcgcgcattcgctccatgcggctttccc-tgactcgc-gccttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGAGAAGACGAGACCCACGTGTCGACCCGAGTCATGGGCACGCAGGGCTACG
|| |    | || |      ||      || ||           |   ||| |||||||     | |  ||||||||||||||| ||||| ||||||||||| || ||||| | ||| || | || |||| |||| || || || || ||| ||||||| ||  | |||||||
gtgagtagaagataaagtaatgaagaaacaatcttggagactaacaaacccgtgactcgttaaatcctctcagGACTACACGGCCAAGCTCTCGGATTTCGGCCTCGCGAAAGATGGCCCGGAAGGAGACAAGACGCATGTTTCCACACGAATCATGGGAACTTACGGCTACG

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|76020783|gb|DT947953.1|DT947953
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
EST: gi|91049702|gb|EB160120.1|EB160120
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
EST: gi|78089533|gb|DV517907.1|DV517907
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGA
EST: gi|91054554|gb|EB164972.1|EB164972
EST:     AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCG                         GACTACACGGGCGAA-CTGTCGGATTTCGGGCT
genomic: AACCCGTCATCTACCGCGACTTCAAGACGTCCAACATCCTGCTGGACTCGgtaaaataat ... cttcattcagGACTACACGG-CGAAGCTGTCGGATTTCGGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggctgcgcgcgcattcgctccatgcggctttccctgactcgcgccttcattcagGACTACACGGCGAAGCTGTCGGATTTCGGGCTAGCGAAGGCTGGACCTGGAGAAGACGAGACCCACGTGTCGACCCGAGTCATGGGCACGCAGGGCTACG
                                ccctgac  putative branch site (score: 3)
                                            ccttcattc  putative PPT