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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGCCTTGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctctacataatgctcaatatcattgtatctgctttacttgtcaacagctgttgactgaagtaaaagtctcatatggtcttcttcatcag

Basic information

species Zea mays
transcript GRMZM2G107731_T02
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107731_T02 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os03g17930.1 (Oryza sativa), 5'ss of exon 9
GATGCCTTGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatg--------------ctctacataatgctcaatatcattgtatctgctttacttgtcaa-cagctgttgactgaagtaaaag---tctcatatggtcttctt-catcag
|||||| |  |||||||||||||||||||||| || |||||| ||||||||||||||||| |               |  |  | | || |||| ||||| | |     ||| || ||||     |||  || ||| |||||    | |   ||| |||| || ||||||
GATGCCCTCACAAAAAGCAATGAAGTCTTTGAGACATACAAGAAGGAGATGGAAAAGgtacgagtgatcatactcatttgagttcacgcacaatgtcattctgttc---ttagttatcaaatgtttgtccacagaaataaaaaaaatattccatgatctttttgcatcag
















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|148994669|gb|EE034190.2|EE034190
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|149071350|gb|EE159745.2|EE159745
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|71758247|gb|DR956184.1|DR956184
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|148937206|gb|EC881387.2|EC881387
EST:     GTCAAAAAGCAATGAAGTCTTTGAAAC-TACCAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: GTCAAAAAGCAATGAAGTCTTTGAAACTTA-CAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|166549275|gb|EG252789.1|EG252789
EST:     GAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: GAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|78022706|gb|DV491093.1|DV491093
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|37394977|gb|CF634768.1|CF634768
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|213169996|gb|FM189145.1|FM189145
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|71774541|gb|DR972419.1|DR972419
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|32931571|gb|CF036383.1|CF036383
EST:     TGTCAAAAAGCAATGAAGTCCTTGAAACCTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTTTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|78114092|gb|DV532481.1|DV532481
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
EST: gi|60337106|gb|DN204079.1|DN204079
EST:     TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAG                         ATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA
genomic: TGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctcta ... tcttcatcagATGATTTCAGTGATAAAGAATCTTAAGAAGGAGAACGAATTTCTGAAGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGCCTTGTCAAAAAGCAATGAAGTCTTTGAAACTTACAAGCAGGAGATGGAAAAGgtatgctctacataatgctcaatatcattgtatctgctttacttgtcaacagctgttgactgaagtaaaagtctcatatggtcttcttcatcag

- - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - -  GATGGA