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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATCTGGAGATGGGAAATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatttagtaatataatttgcctcatcatcaccatttcttctcaaacacataggagagcggtcagcggtgtattattatattaaaaaaagaggga...

Basic information

species Zea mays
transcript GRMZM2G303631_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G303631_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os10g20630.1 (Oryza sativa), 5'ss of exon 9
GAATCTGGAGATGGGAAATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatttagtaatataatttgcctcatcatcaccatttcttctcaaacacataggagagcggtcagcggtgtattattatattaaaaaaagaggga------------
||||| ||| |||| ||||||| ||| |||||||||||||||||||| || ||||||||||||||||||  | ||   |||||     |||  | | | || |  |||    || |||      | | |    || | |||   |   |  |      |   ||               
GAATCAGGAAATGGAAAATGCCAGTGTCCAGCTGGTTTCCGAGGGGATGGTGTTAAAAAATGTGAAGgtattttacg-agtaacgc--tttcgcactttattaggatt----ctaaaa-----ggaaaacttatccgtggttgttcgctggaacccccagcaagttttcttttccactt
















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|32845726|gb|CD985407.1|CD985407
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAG                         ACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
EST: gi|32845732|gb|CD985413.1|CD985413
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAG                         ACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
EST: gi|32843915|gb|CD983596.1|CD983596
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAG                         ACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
EST: gi|91054221|gb|EB164639.1|EB164639
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAG                         ACATTGATGAGTGCANGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
EST: gi|211449603|gb|FL033164.1|FL033164
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAA-TGTGAAG                         ACATTTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCA-C
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATT-GATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAAC
EST: gi|101394205|gb|EB819037.1|EB819037
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAG                         ACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATTGATGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAACT
EST: gi|32843844|gb|CD983525.1|CD983525
EST:     ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAG                         ACATTGATCGAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAAC
genomic: ATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatt ... ttcattgcagACATTGAT-GAGTGCAAGGAGAAAAAAGCTTGTCAGTGTCCTGAATGCAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATCTGGAGATGGGAAATGCCTGTGCCCAGCTGGTTTCCGAGGGGACGGCGTTAAAAAATGTGAAGgtgctgtatttagtaatataatttgcctcatcatcaccatttcttctcaaacacataggagagcggtcagcggtgtattattatattaaaaaaagaggga

- - - - - - - - - - - - - - CAGCTG