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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagattgaatttaactcataaccttgtattagttgagactacttgtctgctcatgttactaaatgagatcaatctccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG

Basic information

species Zea mays
transcript GRMZM5G814700_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 12
-----------gtagattgaatttaactcataaccttgtattagttgagacta-cttgtctgctcatgttactaaatgagat-caatctccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG
            ||  | | ||  |||| ||| | |  |||| ||| |||    |||| ||  ||   ||||| |||| |||     || |||||||||| || || ||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||||||
gtgatctagatttatttagtatgcaactaata-catcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcagAACAAGTGCAATGTAGGCTATGCTTTCATCAATATGACCAATCCTCAGCATATCATTCCATTTTATCAG

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G07290.1 (Arabidopsis thaliana), 3'ss of exon 11
-----------------------gtagattgaatttaactcataaccttgtattagttgagactacttgtctgctcatgttactaaatgagatcaatctcctttt-cagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG
                        |  ||  |||  |    |   |    |  ||| | ||  || || ||| |    | || |||||||        ||  ||| ||||||||||| |||||||| ||||||||||||||| | | | | ||| |  ||||  ||||||||||| ||
gtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattt-tctacat-cgata-taaatgaaccttccttctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAATATTGTTCCGTTTTATAAG

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29695 (Selaginella moellendorffii), 3'ss of exon 7
gtagattgaatttaactcataaccttgtattagttgagactacttgtctgctcatgttactaaatgagatcaatctccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG
                        |  | ||||  |||   |  ||| | |   || || | |  |    |  |  ||| | ||||||||||| || || |||||||| ||||||||||||||| | ||    || ||| | || |||||  ||
-----------------------gtgattttaggcgagcaaaagtgtttccc--tggtattgaccgg---cttttgcctgtgcagAATAAATGCAACGTTGGCTATGCATTCATCAACATGACCGAGCCAGCTCACATCGTCCCCTTTTACAAG

upper sequence: GRMZM5G814700_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29693 (Selaginella moellendorffii), 3'ss of exon 9
gtagattgaatttaactcataaccttgtattagttgagactacttgtctgctcatgttactaaatgagatcaatctccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG
                   ||| | | ||         | | |||   | ||     | || | ||   |   |   | ||||||||||| ||||| || || |||||||||||||||||||     |||  ||||||| | || || |   ||
------------------gtaatcgtataacga---gaaatccttacattct-----tgctgattg---ttggttctcctttcagAATAAGTGTAACGTGGGGTATGCTTTCATCAACATGATTGCACCTGTGCATATCGTCCCTTTCTTCAAG

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|22542340|gb|BU092793.1|BU092793
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
EST: gi|91877858|gb|EB407815.1|EB407815
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTTC-TCAACATG
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTT-CATCAACATG
EST: gi|22472602|gb|BU037082.1|BU037082
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
EST: gi|26558461|gb|CA830696.1|CA830696
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
EST: gi|211008041|gb|FL362435.1|FL362435
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
EST: gi|33093066|gb|CF053060.1|CF053060
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
EST: gi|32867814|gb|CF007496.1|CF007496
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
EST: gi|71772002|gb|DR969939.1|DR969939
EST:     AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTTAG                         AATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT
genomic: AAAGTCATAAGGGCACTTATGATTTTATTTACTTGCCAATTGATTTTAAGgtagattgaa ... tccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttgagactacttgtctgctcatgttactaaatgagatcaatctccttttcagAATAAATGTAATGTCGGCTATGCTTTCATCAACATGACCAATCCTCAGCATATCATTCCGTTTTATCAG
                           tactaaa  putative branch site (score: 1)
                                       tcaatctccttttc  putative PPT
                          ttactaaat  TA-rich tract