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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagttttacaaattacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG

Basic information

species Zea mays
transcript GRMZM2G083344_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G083344_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g15160.1 (Oryza sativa), 3'ss of exon 5
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagttttacaaattacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG
||  | | |   ||  |||||||| | ||| |||| ||  || | | | |    | |  || |||| |||| ||||| |      |||| |     ||||||| || ||||| ||||||||||||||||| |||||||||||||| || | |||||||||||| || ||| | ||||||| ||| || ||||| |
gtactgcaacagtatcttgattttatttttgtatttttggccttttgcgtttcttct--ttatgctgagatttttcctgcaaataaaatgat--tgcagCTCTTGAACCATTTTTCAATGCGGCTGCTTCACAGTTTATCCTTGGCCAGCAAGTTCCATTGACGCTGTGGTTATCTCTTGCTCCGGTTGTGATAG

upper sequence: GRMZM2G083344_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G32190.1 (Glycine max), 3'ss of exon 5
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagttttacaaa-ttacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG
         ||||||     |||   || | |||    |  |    ||  | ||   |    ||     |  ||   |  || | ||| ||      ||||||| || |||||||||||||| |||||||| ||||| || ||||| ||| || | ||  | ||  | |||||||| || | ||| || || ||||
--------gtgataaa--agtttatgatatatatatacacacacacaca-cttgaaaatgcatgtatctactttctaacattgataaacttgtgtttcagCTCTTGAACCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGTCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG

upper sequence: GRMZM2G083344_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G24360.1 (Glycine max), 3'ss of exon 5
---------------gtgat-tctatgataagttgattttctatttctattattatccctctacctcc-tgtttacttgtgctaagatg-tttccagttttacaaa--ttacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG
               | ||| | || |  ||  |   | | ||| | |||   |||   | ||  |   | | ||  |   |  |  |  |||| |   |||  ||  ||      ||||||| ||||||||||||||||| |||||||| ||||| || ||||| ||| || | ||  | ||  | |||||||| || | ||| || || ||||
gtaataaaagtttatgagatatatacgtgaaactatatatatatatatatatatatatatatatatatatatatatatacacgtatctactttctaacattaataaacttgtgtttcagCTCTTGAGCCATTCTTCAATGCTGCTGCTTCACAGTTCATACTTGGCCAATCAATCCCCATCACTTTGTGGCTGTCACTGGCTCCTGTTGTTATTG

upper sequence: GRMZM2G083344_T03 (Zea mays), 3'ss of exon 5
lower sequence: AT5G46110.3 (Arabidopsis thaliana), 3'ss of exon 5
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagttttacaaattacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG
||  || |   | || || ||     ||    | ||  ||  | ||           | |     |   |  ||   | |||| | ||    ||| |||| || |||||||||||||||||||||||||| || || ||  | |||||| |  | ||  | ||||| ||| ||||||| | ||| || ||  |||
gtattttttaaacaaatttatacaacataaaaaataacatttcactg----------aatcaaaatctaacattcatacttttgcgaa----aacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG

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|78104083|gb|DV522501.1|DV522501
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|149009525|gb|EE041508.2|EE041508
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|71439302|gb|DR820352.1|DR820352
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|78087779|gb|DV516172.1|DV516172
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|148961156|gb|EE011865.2|EE011865
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|71768356|gb|DR966293.1|DR966293
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|91055754|gb|EB166172.1|EB166172
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|76930051|gb|DV172256.1|DV172256
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|166562787|gb|EG307350.1|EG307350
EST:     GCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: GCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|94477389|gb|EB706347.1|EB706347
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTTAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCC
EST: gi|149095075|gb|EE180680.2|EE180680
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
EST: gi|148962629|gb|EE013519.2|EE013519
EST:     CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAG                         CTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC
genomic: CACTGTGTCATTTGCTGCTGTAGCTGTGTCATTTGCCCACACTATTAAAGgtgattctat ... tacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacctcctgtttacttgtgctaagatgtttccagttttacaaattacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG
                                   ttttacaaattacaa  TA-rich tract