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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatcttttggcctagaatcacacgttcacacttgagcaccgtttttagcttttgtttaccgtcttgcagtgtcatcccttctttcaaaacctagctga...

Basic information

species Zea mays
transcript GRMZM2G139683_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139683_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os07g07020.2 (Oryza sativa), 5'ss of exon 3
GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatcttttgg--cctagaatcacacgttcacacttgagcaccgttt-ttagcttttgtttaccgtcttgcagtgtcatcccttctttcaaaacctagctga--
|||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||||||||||||| ||| |||||||||| ||||   ||     ||  |   | |||| ||  |||| ||| | | | ||| | ||      | |  |  ||||| |||    ||  || |  | |  
GTATCCACACTGCCTTTTCTTTCTTGAGCTCCTCCAAAATGCGAATTTCCGGAATGCAATGGCACATCCAGCAAGCAAGgtgatcctttgaatccctttttcctagaattacacatg--caccatttgtcaacctttttatagtactgttctataacatcctttca---aattcccattttatt

upper sequence: GRMZM2G139683_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g41450.1 (Oryza sativa), 5'ss of exon 4
GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatcttttggcctagaatcacacgttcacacttgagcaccgtttttagcttttgtt-taccgtcttgcagtgtcatccc---ttctttcaaaacctagctga
|||||| ||||||||||||||||||||||| ||||||||||| |||||||| ||||||||||| |||||| ||| |||||||| | ||||    |           |   ||    |  || |||  | ||||| |  ||||| ||   |   || |  |   ||    |   |   ||   |
GTATCCGCACTGCCTTTTCTTTCTTGAGCTCCTCCAAAATGCGAATTTCCGGAATGCAATGGCCCATCCAGCAAGCAAGgtgaccctttga---aaccctttttcctagtacacatgtgccatttcaaccttttatagtaccgcct-ataacatcctttcagatttcccctttattaagtgta

upper sequence: GRMZM2G139683_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G28990.1 (Glycine max), 5'ss of exon 4
GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatcttttg-gcctagaatcacacgttcacacttg-agcaccgtttttagcttttgttt---accgtcttgcagtgtcatcccttctttcaaaacctagctga
|||||| || ||||| |  ||||||||||| || || ||||| ||||| || || ||||||||||||||||| || ||||| |      |   ||     | |  ||    | |    |||   | | |  ||||| |     |   || |  | |  ||    | |||  |||   ||     
GTATCCTCATTGCCTCTATTTTCTTGAGCTGCTTCAGAATGCAAATTTTCGCAACGCAATGGCACATCCAACCAATAAGgtaaatggcagtatctttttgctcctgtctgaagtaacggcattctctatttcttttataatagattctcctttaatagcaaatttgcttgtaaa-tgtat----

upper sequence: GRMZM2G139683_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA10G38750.2 (Glycine max), 5'ss of exon 5
GTATCCACACTGCCTTTTCTTTCTTGAGCTTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatcttttggcctagaatcacacgttcacacttgagcaccgtttttagcttttgtttaccgtcttgcagtgtcatcccttctttcaaaacctagctga--------
|||||| || ||||| |  ||||||||||| || || ||||| ||||| || ||||||||||| |||||||| || ||||| |    |||   ||   |    | | |   ||  || | ||   |||   | | |||    | |   ||  |  ||| ||  |   |||  ||  ||         
GTATCCTCATTGCCTCTATTTTCTTGAGCTGCTTCAGAATGCAAATTTTCGCAATGCAATGGCGCATCCAACCAATAAGgtaa---attgcagtatctttttgc-tcctgtctgaagtaacggcctta---tctatttcttttataatag-attctcctttaatatcaaatttacttgtaattgtat

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|78021237|gb|DV489624.1|DV489624
EST:     AAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: AAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|71765862|gb|DR963799.1|DR963799
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|28910217|gb|CB331329.1|CB331329
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|26559121|gb|CA831356.1|CA831356
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|93016786|gb|EB642306.1|EB642306
EST:     CCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: CCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|94479606|gb|EB708564.1|EB708564
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|93016785|gb|EB642305.1|EB642305
EST:     CCAACAAACAAG                         GAGCTTGGTCATAGGCAGCAATATTTCTTCTGGAAAAAATACAGGAATAAC
genomic: CCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|87157028|gb|DY401817.1|DY401817
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|22521504|gb|BU080315.1|BU080315
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|32837416|gb|CD977094.1|CD977094
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|60352751|gb|DN219724.1|DN219724
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
EST: gi|5901084|gb|AW042184.1|AW042184
EST:     TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAG                         GAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC
genomic: TTCTCCAAAATGCCAATTTCCGAAATGCAATGGCACATCCAACAAACAAGgtgatctttt ... tgtttgacagGAGCTTGCTCATAGGCAGCAATATTTCTTCTGGAAAAACTACAGGAATAAC