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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCTGAACGAGAGGAGCGACGTGTACAGCTTCGGGATCCTGATCATGGAGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcggcgtttgtggttgatcaattcaacgaacgaagcaacgggatcctgatcctgctgtgctgctgctacag

Basic information

species Zea mays
transcript GRMZM2G147051_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147051_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g36050.1 (Oryza sativa), 5'ss of exon 5
CATGCTGAACGAGAGGAGCGACGTGTACAGCTTCGGGATCCTGATCATGGAGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcggcgtttgtggttgatcaattcaacgaacgaa----------gcaacgggatcctgatcctgctgtgctgctgctacag-----
 |||||||| ||||| ||||| ||||||||||||||||||||||| ||||| ||||||||||| |||||||| ||||| ||||| ||| || | ||||||||  |  |  | | ||  |||||  | |  ||| | |  |           ||| | | | ||   |||    | |||  | | ||      
GATGCTGAATGAGAGAAGCGATGTGTACAGCTTCGGGATCCTGATAATGGAAATCATCTCCGGTCGAAGCCCGGTCGATTACGCAAGGGCTCCAGGAGAGgttggctcttcatctg--gttgaatactgaaacaagcttatgttgtgtgtacaatgtgcttcttggccttaatttctgtgggtgcatttcag
















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|91878715|gb|EB408672.1|EB408672
EST:     GATCATCTCCGGCCGAAGCCCCGTGGACTACGCCAGGGCCTGCCGGAGAGG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGA
genomic: GATCATCTCCGGCCGAAGCCCCGTCGACTACGCCA-GGCCTGCCGGAGA-Ggtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGA
EST: gi|88755336|gb|DY539477.1|DY539477
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGATTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|29946455|gb|CB816158.1|CB816158
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAANCCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|71762919|gb|DR960856.1|DR960856
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGATTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|31909293|gb|CD650846.1|CD650846
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|71308371|gb|DR790412.1|DR790412
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|71439998|gb|DR821048.1|DR821048
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|31909329|gb|CD650864.1|CD650864
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|30088116|gb|CB886321.1|CB886321
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|31909517|gb|CD650958.1|CD650958
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|50337020|gb|CO532146.1|CO532146
EST:     ACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: ACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|28987043|gb|CB351436.1|CB351436
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|71315686|gb|DR794464.1|DR794464
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|4646607|gb|AI491416.2|AI491416
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
EST: gi|211492061|gb|FL444499.1|FL444499
EST:     AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCTTGCCGGAGAG                         GTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG
genomic: AGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcgg ... gctgctacagGTAAACCTTGTAGAGTGGCTCAAGAACAAGGTGACCAACAGGGACTACGAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGCTGAACGAGAGGAGCGACGTGTACAGCTTCGGGATCCTGATCATGGAGATCATCTCCGGCCGAAGCCCCGTCGACTACGCCAGGCCTGCCGGAGAGgtcagtgcggcgtttgtggttgatcaattcaacgaacgaagcaacgggatcctgatcctgctgtgctgctgctacag

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