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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAGTACGTCATCTGCAATGGATGCAAGAGCCCTGATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtctgcagttttggtgtgatgtatttccaatagctctaggcactttcagtcattcccatctcattcccctatacatgattattttgttatacat...

Basic information

species Zea mays
transcript GRMZM2G080048_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G080048_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os07g48300.1 (Oryza sativa), 5'ss of exon 9
ATGAGTACGTCATCTGCAATGGATGCAAGAGCCCTGATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtctgcagttttggtg-tgatgtatttccaatagctctaggcactttcagtcattcccatctcattcccctat-acatgattattttgttatacat
||||||||||||| |||||||| ||||| ||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||| |  | | ||   || |  || || | || |  |     |     |  | |||   |   ||| ||| || | | |  |||| ||  ||      
ATGAGTACGTCATTTGCAATGGTTGCAAAAGCCCTGATACCATTCTATCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgccgtctgattatctgcttgtgcatgttcagttacatccagtttgcttcggcatgagcga-tcactcctctgtgaaaacattagttaattgcctt-

upper sequence: GRMZM2G080048_T01 (Zea mays), 5'ss of exon 8
lower sequence: PP1S280_23V6.1 (Physcomitrella patens), 5'ss of exon 7
ATGAGTACGTCATCTGCAATGGATGCAAGAGCCCTGATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatg-tctgcagttttggtgtgatgtat-ttccaatagctctaggcactttcagtcattcccatctcattcccctatacatgattattttgttatacat----------------------------------------------------------------------------
| ||||||||||| |||||||| ||||||||||||||||||||||| |||||||| ||||| |||||||||||||| || |||||||||| |  |   || |||||  |   | | | || |  | | | |    ||||  |    |||   | || ||    || |||    ||||||||  |                                                                                
ACGAGTACGTCATGTGCAATGGTTGCAAGAGCCCTGATACCATTCTTTCCAAGGAGAATCGGCTGTTCTTCCTTCGTTGTGAACAGgtaagtaattctcaattttgtggctttttctatttcggtggttgtttatacttgtacaatttctactttcttttatttagacacctctattttgtgctcttcttttttaatgcaagacacagtctttgtttcgtgatattatttatacggacatgaccgatgggttgcttgtcaacag
















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|71300898|gb|DR786478.1|DR786478
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|37374973|gb|CF623896.1|CF623896
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60399446|gb|DN232258.1|DN232258
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|110538607|gb|EE042572.1|EE042572
EST:     AAATCGTCTTTTCTTCTTTCGCTGGGAACAG                         TGGGGATCTTCAAGGTCCGGTTGCTCCAATCAAAGCTGGGATTCGTTGCTC
genomic: AAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCC-GTTGCTCCAATCAAAGCT-GGATTCGTTGCTC
EST: gi|37383473|gb|CF628753.1|CF628753
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|211375010|gb|FL430791.1|FL430791
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|32841702|gb|CD981383.1|CD981383
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|32837616|gb|CD977294.1|CD977294
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGAT-TTTTTGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60354326|gb|DN221299.1|DN221299
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|6527068|gb|AW216283.1|AW216283
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|94473773|gb|EB702731.1|EB702731
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCTTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|32931720|gb|CF036532.1|CF036532
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGCGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|26455990|gb|CA827573.1|CA827573
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|211252876|gb|FL444298.1|FL444298
EST:     ATTCCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|6031557|gb|AW076459.1|AW076459
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|91875908|gb|EB405865.1|EB405865
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCTTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60357822|gb|DN224795.1|DN224795
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|19822348|gb|BQ048372.1|BQ048372
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|32863956|gb|CF003638.1|CF003638
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|32838696|gb|CD978377.1|CD978377
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|211028365|gb|FL441143.1|FL441143
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60395435|gb|DN228305.1|DN228305
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|211091005|gb|FL434673.1|FL434673
EST:     TTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: TTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|14191391|gb|BG833621.1|BG833621
EST:     TGACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: T-ACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|32863955|gb|CF003637.1|CF003637
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|211047495|gb|FL474402.1|FL474402
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60396947|gb|DN229766.1|DN229766
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|44901480|gb|CK828025.1|CK828025
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60347700|gb|DN214673.1|DN214673
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|27521993|gb|CA989099.1|CA989099
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTTTTCCTTCGCTGCGAACAG                         TGTGGATTTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|113684258|gb|DW836400.1|DW836400
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCG
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCG
EST: gi|60398984|gb|DN231800.1|DN231800
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
EST: gi|60349100|gb|DN216073.1|DN216073
EST:     ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAG                         TGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA
genomic: ATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtct ... ttttatttagTGTGGATCTTCAAGGTCCGTTGCTCCAATCAAAGCTGGATTCGTTGCTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGAGTACGTCATCTGCAATGGATGCAAGAGCCCTGATACCATTCTGTCCAAGGAAAATCGTCTGTTCTTCCTTCGCTGCGAACAGgtaaatgtctgcagttttggtgtgatgtatttccaatagctctaggcactttcagtcattcccatctcattcccctatacatgattattttgttatacat

- - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA