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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaaacaacctatatatatatacacacacgctgttactgcaataagagcatgtagatgatgcagatctgaatgggaggttagaaagggattgtgattaatctaacccccattgatatgtgtatgcatgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCGTGCTCACCTTCAAGCCTTTCCTCGCGGTTCCCCAGCAGTACAAACAGTG

Basic information

species Zea mays
transcript GRMZM5G877788_T04
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G877788_T04 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os12g03860.1 (Oryza sativa), 3'ss of exon 16
gtaattaaacaacctatatatatatacacacacgctgttactgcaataagagcatgtagatgatgcagatctgaatgggaggttagaaagggattgtgattaatctaacccccattgatatgtgtatgcatgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCGTGCTCACCTTCAAGCCTTTCCTCGCGGTTCCCCAGCAGTACAAACAGTG
                             | |  ||| || || |      ||   ||| | ||| |    | ||| || | || | || |  |  |   | || |||     ||||  |  |  | |      || ||||||||||||||| ||||| || ||||||||||| |||||||| |||||| || | |||||||| |||||| | || ||||| || || || ||| ||  
-----------------------tggtttatagtctgctattgtacct---gctcttaggt-atgta----taaatcggtgctttgtaatgtttatttgatcatataa-----attgtaaattcaacgt---tgtgcagGTGACCAGATGGTATTTCTTCTACTGAATCTGACCGAGGTCATTGGGCTCATGTTAACCTTCAAACCTTTCTTGGCTGTTCCTCAACAATATAAATAGAA

upper sequence: GRMZM5G877788_T04 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os11g04030.4 (Oryza sativa), 3'ss of exon 10
-------------------gtaattaaacaacctatatatatatacaca-cacgctgttactgcaataagagcatgtagatgatgcagatctgaatgggaggttagaaaggga---ttgtgattaatctaacccccattgatatgtgtatgca-tgc-atgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCGTGCTCACCTTCAAGCCTTTCCTCGCGGTTCCCCAGCAGTACAAACAGTG
                    | || || ||   |  |   ||    |||  ||  | |    |  |    | ||  | | || ||   ||    |    |    |||||  ||   ||||| |   |  |        | | |||   || || ||   || |||||| ||||||||||||||  | ||||| ||||| |||||||| || ||| || | |||||||| |||||| | |||||||| || || |||||| ||  
gtaaatactcctatgcatttttatgaaccatgttgcagccattactacagtactttatataagtgaagtaaacaaatcggtgttgtgaattactagcacatacaagaaatagaaacttgtgttatgttgatttgatcataaaatggaaattcaatgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCATGTTGACCTTCAAACCTTTCTTGGCGGTTCCTCAACAATACAAATAGAA
















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|50337159|gb|CO532285.1|CO532285
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|211451241|gb|FL460010.1|FL460010
EST:     GTTYTCGTGGGCACAGAAGCGCCAGCAWGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|67015011|gb|CO443760.1|CO443760
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|6021969|gb|AW066897.1|AW066897
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|211396502|gb|FK986087.1|FK986087
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTG
EST: gi|76926346|gb|DV170820.1|DV170820
EST:     GTTTTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTTTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|71427484|gb|DR808534.1|DR808534
EST:     GTTTTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|76018157|gb|DT945327.1|DT945327
EST:     GTTTTTGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTTTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|78084898|gb|DV513291.1|DV513291
EST:     GTTTTTGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTTCAG                         GTGACCAGATGGTGTTTTTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|78123316|gb|DV541700.1|DV541700
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|74243543|gb|DT651457.1|DT651457
EST:     GTTTTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTTTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|149077505|gb|EE166202.2|EE166202
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|94474394|gb|EB703352.1|EB703352
EST:     GTTTTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
EST: gi|71428520|gb|DR809570.1|DR809570
EST:     GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAG                         GTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG
genomic: GTTCTCGTGGGCACAGAAGCGCCAGCATGCCGCGTTCTTTCCAGgtaattaaac ... atgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaagggattgtgattaatctaacccccattgatatgtgtatgcatgcatgtagGTGACCAGATGGTGTTTCTGCTCCTGAATCTGACGGAGGTCATCGGGCTCGTGCTCACCTTCAAGCCTTTCCTCGCGGTTCCCCAGCAGTACAAACAGTG
              attaatctaa  TA-rich tract