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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagtgtttcggggggtgcggtccattggactttgaatcgcacgttggtgttgttttccactaacacacacaacatttgaaatgcag

Basic information

species Zea mays
transcript GRMZM2G128995_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128995_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os05g51530.2 (Oryza sativa), 5'ss of exon 10
TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagtgtttcggggggtgcggtccattggactttgaatcgcacgttggtgttgttttccactaacacacacaacatttgaaatgcag
||||||||||| ||||| |||  |||| | || |||||||||||||||||| | ||||| ||||| ||||||| ||||||||||||||| ||||  |   |||   | ||||| | | | | || ||   ||    || |||   |  |   |   | | | |||| |||||
TCTGCTGTTCTAGCACCTTCTCAAAAGGGTGAAAAGAAAGTAAGGAGCATCCTGGAGGAACTCTGTGGCAATGTCCATAGgtaattcagcgtttgagtttgtg---ttcattgcattgttagtcacaacatgcacctgcttttgtc--attaattgagcctctgaattgcag
















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|88747608|gb|DY531749.1|DY531749
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTTTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|67019107|gb|CO447856.1|CO447856
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|31364225|gb|CD448580.1|CD448580
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|148963814|gb|EE014911.2|EE014911
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTTTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|40334835|gb|CK368905.1|CK368905
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|4610005|gb|AI600844.1|AI600844
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|60338283|gb|DN205256.1|DN205256
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|17929493|gb|BM266453.1|BM266453
EST:     AGAAGAAAGTAAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAAACGACGTAGGCGTCGCCGGTCTGGGAGGT-A
genomic: AGAAGAAAGT-AAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|37401333|gb|CF638029.1|CF638029
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|37377800|gb|CF625543.1|CF625543
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|148984566|gb|EE029569.2|EE029569
EST:     GGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|33095927|gb|CF055921.1|CF055921
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|32910284|gb|CF015096.1|CF015096
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGT
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGT
EST: gi|60354564|gb|DN221537.1|DN221537
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTGTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|12972189|gb|BG267858.1|BG267858
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|211151579|gb|FL387831.1|FL387831
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|24763202|gb|CA398382.1|CA398382
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|149000733|gb|EE037951.2|EE037951
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|211040893|gb|FL451654.1|FL451654
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|149098810|gb|EE184821.2|EE184821
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|148968977|gb|EE019671.2|EE019671
EST:     GAGAAGAAAGTAAGGAGCATTTTAGAGGAGCTTTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTTTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|37394376|gb|CF634461.1|CF634461
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|110964923|gb|EE184823.1|EE184823
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|40303110|gb|CK347497.1|CK347497
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|149000703|gb|EE037917.2|EE037917
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|148954148|gb|EC899547.2|EC899547
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|67017448|gb|CO446197.1|CO446197
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|37391067|gb|CF632773.1|CF632773
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|32907248|gb|CF012061.1|CF012061
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|14245311|gb|BG873893.1|BG873893
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|78076481|gb|DV504915.1|DV504915
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|211201056|gb|FL359983.1|FL359983
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|67013699|gb|CO442448.1|CO442448
EST:     AGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGNCA-TGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGGAG-TG
genomic: AGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGG-CAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGG-AGGTG
EST: gi|37378328|gb|CF625849.1|CF625849
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|71427969|gb|DR809019.1|DR809019
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTTTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
EST: gi|4388189|gb|AI491361.1|AI491361
EST:     GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAG                         TATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA
genomic: GAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagt ... tgaaatgcagTATTTATTGGAAATCCGAAGACGACGTAGGCGTCGCCGGTCTGGGAGGTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGAGGAGCTCTGCGGCAATGCCCATAGgtaattcagtgtttcggggggtgcggtccattggactttgaatcgcacgttggtgttgttttccactaacacacacaacatttgaaatgcag

- - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT