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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCCGCTGCCATTCAACAAGATTTGCCCAAAGTAATGACCAAGATGAGGTTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatatccatcccacatatgcgtacaccatctttttgccttccagttttttcaagaaatatcaaggacttgtgagctttagttcaagaattaggtt...

Basic information

species Zea mays
transcript GRMZM5G825854_T02
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825854_T02 (Zea mays), 5'ss of exon 24
lower sequence: LOC_Os08g34970.1 (Oryza sativa), 5'ss of exon 24
TTGCCGCTGCCATTCAACAAGATTTGCCCAAAGTAATGACCAAGATGAGGTTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatatccatc-ccaca-tatgcgtacacc-atctttttgccttccagttttttcaagaaatatcaaggacttgtgagctttagttcaagaattaggtt
|||   |||| ||||| |||||||| |||||||||||||||| |||||||||||||||||||||||||||||| ||| |||| ||||||||||| |||||||| | || | |||| |||||  ||    | ||| |||||||   |        |||| |   ||||||  ||   |||||    |   | || |||    ||
TTGGGACTGCTATTCAGCAAGATTTACCCAAAGTAATGACCATGATGAGGTTGTATTTGCAAAATCCATCTACGCGGTTGATTTTATTCAAACCAATCAAgtaagtatttacatctccacagcatctacaaacctatcttttgttcacgtctgctttttacataatatcctgg---tgtgatggcttaataaataatgttatt
















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|37392536|gb|CF633520.1|CF633520
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|37383203|gb|CF628592.1|CF628592
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|37389357|gb|CF631898.1|CF631898
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|86468964|gb|DY235334.1|DY235334
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|93281266|gb|EB673530.1|EB673530
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGTTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|6194992|gb|AW147096.1|AW147096
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|211226277|gb|FK968324.1|FK968324
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|211285685|gb|FL478243.1|FL478243
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|60348401|gb|DN215374.1|DN215374
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|32929996|gb|CF034808.1|CF034808
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|67025660|gb|CO454409.1|CO454409
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|211224224|gb|FK968323.1|FK968323
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|4776079|gb|AI665082.1|AI665082
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATTTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATCCAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|71432707|gb|DR813757.1|DR813757
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|60348441|gb|DN215414.1|DN215414
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|60341619|gb|DN208592.1|DN208592
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|60340575|gb|DN207548.1|DN207548
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTTTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|149104240|gb|EE289676.2|EE289676
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|211362787|gb|FL472151.1|FL472151
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|148953559|gb|EC898910.2|EC898910
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATTTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTTTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|71432706|gb|DR813756.1|DR813756
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
EST: gi|211224223|gb|FK968322.1|FK968322
EST:     TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAA                         GACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA
genomic: TTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatat ... ttggccgcagGACAAATATAGTTGAGGCTCATATACAGCTGCATTCCCTTCTGAAGTCGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCCGCTGCCATTCAACAAGATTTGCCCAAAGTAATGACCAAGATGAGGTTGTATTTGCAAAATCCATCTACTCGGATGATCTTATTCAAACCTATCAAgtatggatatccatcccacatatgcgtacaccatctttttgccttccagttttttcaagaaatatcaaggacttgtgagctttagttcaagaattaggtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catcccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaata