Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatccggcggtctcgaatcgaacgctgcaggccttgtcagcaggcacactcattcaacggtgtacggcgtgtaaggccatggactcacgggtcgcacgtggtgcgctgctgaacttgtag

Basic information

species Zea mays
transcript GRMZM2G119265_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G119265_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g65590.1 (Oryza sativa), 5'ss of exon 3
AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatccggcggtc-tcgaatcgaacgctgcaggccttgtcagcaggcacactcattcaacggtgtacggcgtgtaaggccatggactcacgggtcgcacgtggtgcgctgctgaacttgtag
|| || || |||| | | || | |||  || ||||||||||||| || ||||| || ||||||||||||||||    |     || || ||||   |   |  | | ||  || ||   | || |       | || | | |     ||   | |  |  |                              
AAGCTAGGCGAGAGCAATCCAACGGACATCATGAACGAGGTGTCCAGGACTCACCACGCAATCCAgtaagcattttccttcgatcaaagcgaatcataacgtacgtatct-catgcgagcccaatggtgatcgaactgtgcgagctccctccggcctatag------------------------------
















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|211223642|gb|FL051772.1|FL051772
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGGTGTCCACCCTGGAGATTGAGATGGCCGTGGAAC
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGG-TGTCCACCCTGGAGATGGAGATGGCCGTGGAAC
EST: gi|211225710|gb|FL051790.1|FL051790
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGAT
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGAT
EST: gi|211223637|gb|FL051767.1|FL051767
EST:     SASCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225709|gb|FL051789.1|FL051789
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211221584|gb|FL051760.1|FL051760
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225698|gb|FL051778.1|FL051778
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCT-GGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
EST: gi|211227757|gb|FL051793.1|FL051793
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225704|gb|FL051784.1|FL051784
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTG
EST: gi|211225703|gb|FL051783.1|FL051783
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCSGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225708|gb|FL051788.1|FL051788
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
EST: gi|149112056|gb|EE191226.2|EE191226
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211221585|gb|FL051761.1|FL051761
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211223632|gb|FL051762.1|FL051762
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCTCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
EST: gi|211223639|gb|FL051769.1|FL051769
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225700|gb|FL051780.1|FL051780
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211223644|gb|FL051774.1|FL051774
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211221583|gb|FL051759.1|FL051759
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211227756|gb|FL051792.1|FL051792
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225699|gb|FL051779.1|FL051779
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211225707|gb|FL051787.1|FL051787
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAA
EST: gi|211225711|gb|FL051791.1|FL051791
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACC-TGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211221582|gb|FL051758.1|FL051758
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211223645|gb|FL051775.1|FL051775
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
EST: gi|211223638|gb|FL051768.1|FL051768
EST:     CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA                         GTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG
genomic: CACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatcc ... gaacttgtagGTCGCTGGACAAGGCGGTGTCCACCCTGGAGATGGAGATGGCCGTGGAACG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCAgtaagcatccggcggtctcgaatcgaacgctgcaggccttgtcagcaggcacactcattcaacggtgtacggcgtgtaaggccatggactcacgggtcgcacgtggtgcgctgctgaacttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA