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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactaaccactgaatgcctcagagccattgcacagacagacagagctgggagttgctgaagcctgtgtgtgcttacttgatgagctgtgcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGACGGAAGGCCTGGGTGTGTTCAGAACACATGTGCTCACAGGGCTTGCCCGC

Basic information

species Zea mays
transcript GRMZM2G038487_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 4
gtaaactaaccactgaatgcctcagagccattgcacagacagacagagctgggagttgctgaagcctgtgtgtgcttacttgatgagctgtgcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGACGGAAGGCCTGGGTGTGTTCAGAACACATGTGCTCACAGGGCTTGCCCGC
|||||   | ||  |   |  |||| ||  ||    |    | ||||| | | |||||| ||| | | ||| |  ||  |   ||   || ||||||||||||||| |||| ||| || |||||||||||||| || ||||| ||||| || || || ||||| ||||||  |||||||||||||||||| |||||||| |
gtaaa---aacaacgtgcgattcag-gcatttttttacgaggtcagagttagcagttgcagaaacttatgtttatttgat--gtggtttgcgcattctcagGTGCCAATAGATTGTTTTGAGGAGCAGTGGGTAATTTTCCGAGGAAAGGATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTC

upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 4
gtaaactaac-cactgaatgcctcagagccattgcacagacagacagagctgggagttgctgaagcctgtgtgtgcttacttgatgagctgtgcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGACGGAAGGCCTGGGTGTGTTCAGAACACATGTGCTCACAGGGCTTGCCCGC
      |||| || ||||||  |||| ||  || ||  | |   | ||| |   ||||  |||      | |||  | |  || |   |||||  ||||||||| || |||| ||| || |||||||||||||| || ||||| ||||| || || || ||||| |||||||||||||||||||||||||| || ||||| |
-----gtaacgcaatgaatgattcag-gcatttacaatgtc---cggag-taccagttaatga------tatgttttgatgtggt---ctgtgtgttctcagGTACCAATAGATTGTTTTGAGGAGCAGTGGGTAATTTTCCGAGGAAAGGATGGGAGACCTGGATGTGTTCAGAACACATGTGCTCACAGAGCCTGCCCTC

upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G42840.1 (Glycine max), 3'ss of exon 4
gtaaactaaccactgaatgcctcagagccattgcacagaca-gacagagctgggagtt--gctgaagcctgtgtgtgctta--cttgatgagc-tgtgcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGACGGAAGGCCTGGGTGTGTTCAGAACACATGTGCTCACAGGGCTTGCCCGC
       ||   ||    |   | |||   |    |||| | || |   |  | | |            |   |   ||||  | || | | | | | | || |||| | || ||||  || || ||||| |  ||||| || ||||| || ||||| || | ||||||||||||||||||||| ||||| ||||| || || || |
-------aatttcttggggtgacggagttctgtgtcagataagagactacctgtactccaatctggatgtaaattctcttaagcatgttaatccttttctttttcagATCCCAATAGAATGTTTTGAGGAACCATGGGTCATCTTCCGAGGGAAAGATGGGAAGCCTGGGTGTGTTCAGAACACCTGTGCACACAGAGCATGTCCTC

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|148963856|gb|EE014962.2|EE014962
EST:     ACTTCTGGTACCCAGTCGCCTTCTCCAGTGATCTGAAAGATGACACCATG                         GTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATT
genomic: ACTTCTGGTACCCAGTCGCCTTCTCCAGTGATCTGAAAGATGACACCATGgtaaactaac ... gcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATT
EST: gi|71768332|gb|DR966269.1|DR966269
EST:     ACTTCTGGTACCCAGTCGCCTTCTCCAGTGATCTGAAAGATGACACCATG                         GTGCCGATAGCTTGCTT
genomic: ACTTCTGGTACCCAGTCGCCTTCTCCAGTGATCTGAAAGATGACACCATGgtaaactaac ... gcattctcagGTGCCGATAGCTTGCTT
EST: gi|211347947|gb|FL254258.1|FL254258
EST:     ACTTCTGGTACCCAGTCGCCTTCTCCAGTGATCTGAAAGATGACACCATG                         GTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGAC
genomic: ACTTCTGGTACCCAGTCGCCTTCTCCAGTGATCTGAAAGATGACACCATGgtaaactaac ... gcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctgggagttgctgaagcctgtgtgtgcttacttgatgagctgtgcattctcagGTGCCGATAGCTTGCTTCGAGGAGCAGTGGGTGATATTCCGTGGAAAAGACGGAAGGCCTGGGTGTGTTCAGAACACATGTGCTCACAGGGCTTGCCCGC
                                              cattctc  CT-rich tract