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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGCGCGCGTCCCGAGGTCGGCGGAGCAGGGTCGGGAGGAGGGTATGGCGGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatccgatttcgtctcactcactctactgcccaccagatgctcgtgtcgttgattttgctgctgctgctctctgtgtgtgtgtgtgtgggtgggtgggtgcag

Basic information

species Zea mays
transcript GRMZM2G023528_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G023528_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g03740.1 (Oryza sativa), 5'ss of exon 1
GGAGCGCGCGTCCCGAGGTCGGCGGAGCAGGGTCGGGAGGAG--GGTATGGCGGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatccgatttcgtctcactcactctactgcccaccagatgctcgtgtcgttgattttgctgctgctgctctctgtgtgtgtgtgtgtgggtgggtgggtgcag
   ||| |||     ||    | |||||||   | | || ||  |  |||||||| || |||||||||||||||||||| |||| |||||||||| ||||||||| | |  |       |  ||  |   | | || |      |    |  ||   ||| ||| | |  || || |   ||  ||    || |   | ||| ||||||||
--CGCGAGCGAGAGAAGAGGAGGGGAGCAGCAGCAGCAGCAGCAGCAATGGCGGTCGTCGGCGTCCTCGCGCTGCAGGGCTCCTTCAACGAGCACTTGGCCGgtatgtatgcgcccactgcttctgttttttttcttcttttttgggaattttggt-ttggtttggtt--tgttggttgttgattg---atgcggatgcgggggggtgcag
















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|6859922|gb|AW355916.1|AW355916
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGNGTGAAGGGGGTGGAGGGGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|91055149|gb|EB165567.1|EB165567
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|78120474|gb|DV538858.1|DV538858
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|71437533|gb|DR818583.1|DR818583
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|149073844|gb|EE162166.2|EE162166
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|74233031|gb|DT640945.1|DT640945
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|86472531|gb|DY238901.1|DY238901
EST:     GGGGGTGGGCGTCCTCGCGCTGCGGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|148986692|gb|EE030480.2|EE030480
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
EST: gi|15100467|gb|BI396258.1|BI396258
EST:     GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCG                         CGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC
genomic: GGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatc ... gtgggtgcagCGCTGAGGAGGATCGGGGTGAAGGGGGTGGAGGTGCGCAAGCCAGAGCAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGCGCGCGTCCCGAGGTCGGCGGAGCAGGGTCGGGAGGAGGGTATGGCGGTGGTGGGCGTCCTCGCGCTGCAGGGATCCTACAACGAGCACATGGCCGgtacggaatccgatttcgtctcactcactctactgcccaccagatgctcgtgtcgttgattttgctgctgctgctctctgtgtgtgtgtgtgtgggtgggtgggtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG