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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGGTTCCCTAGATGATCTTGTCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggacttccaagtttggagtttgatttcttgttcgcgaaggatcggattcgaatttgtgtaggttgtaacattgctctatggcttcaaacag

Basic information

species Zea mays
transcript GRMZM2G081682_T01
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081682_T01 (Zea mays), 5'ss of exon 19
lower sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 19
GATGGTTCCCTAGATGATCTTGTCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggacttc-caagtttggagtt--tgatttcttgttcgcgaaggatcggattcgaatttgtgtaggttgtaacattgctctatggcttcaaacag
||||||||||| ||||| ||||| |||||||| |||||||| |||||||||||||| ||||||||||| |||||||     |   | | ||| ||| |  || ||||||   |  | | ||| | |||  ||         ||   ||  |||    |||| |||||| ||
GATGGTTCCCTGGATGAGCTTGTTCGCAAGCGCTACCAGAGTTTTGATAGTGAGATCGGTGCCTTGATTGAGgtacaatgttcaactactttagagctcttgctttcttacacttggatgattgaattgaaac-------agtaacaa--ttggctcatggtttcaaatag
















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|33101487|gb|CF061447.1|CF061447
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|32908733|gb|CF013546.1|CF013546
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|5762062|gb|AI967110.1|AI967110
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|24764290|gb|CA399456.1|CA399456
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|5739589|gb|AI947384.1|AI947384
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|211046951|gb|FL455967.1|FL455967
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGATATCGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|6095640|gb|AW120307.1|AW120307
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|4688570|gb|AI637240.1|AI637240
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|26559536|gb|CA831771.1|CA831771
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|9794851|gb|BE553159.1|BE553159
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|32916469|gb|CF021281.1|CF021281
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|60347665|gb|DN214638.1|DN214638
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|87155905|gb|DY400694.1|DY400694
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|211046948|gb|FL455964.1|FL455964
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGATATCGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|7145170|gb|AW506651.1|AW506651
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|21389890|gb|BQ527939.1|BQ527939
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|211046950|gb|FL455966.1|FL455966
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGATATCGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|32866939|gb|CF006621.1|CF006621
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|74232803|gb|DT640717.1|DT640717
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|60358930|gb|DN225903.1|DN225903
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|22715090|gb|BU197572.1|BU197572
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|22715088|gb|BU197571.1|BU197571
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTCCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|60398484|gb|DN231300.1|DN231300
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|211313620|gb|FL416741.1|FL416741
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTG
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTG
EST: gi|32909378|gb|CF014190.1|CF014190
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|31250143|gb|CD219167.1|CD219167
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|21331635|gb|BQ487016.1|BQ487016
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|76014001|gb|DT941171.1|DT941171
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|5804468|gb|AI979438.1|AI979438
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGCCTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
EST: gi|74237144|gb|DT645058.1|DT645058
EST:     TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAG                         GCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT
genomic: TCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggact ... cttcaaacagGCTGGGAAAGGAGACTTTGAGACGCTAGAAAAGAAGGTTCTAGAGTGGGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGGTTCCCTAGATGATCTTGTCCGCAAGCGGTACCAGAGCTTTGATAGTGAGATTGGTGCCTTGATCGAGgtactggacttccaagtttggagtttgatttcttgttcgcgaaggatcggattcgaatttgtgtaggttgtaacattgctctatggcttcaaacag

- - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - GAGCTT