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

TCCAGTGGACATAAAGACACCATACGAGAAGATGGTGGAAAACATGGTTGAATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcactcatgccgaaagatatttctgatgcaaatgcaatgttcgtggcttcaaattaatgtagtaatagtaccaatcacacaagtttaggaatttt...

Basic information

species Zea mays
transcript GRMZM2G072865_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G072865_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g43350.1 (Oryza sativa), 5'ss of exon 1
TCCAGTGGACATAAAGACACCATACGAGAAGATGGTGGAAAACATGGTTGAATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcactcatgccgaaagatatttctgatgcaaatgcaatgttcgtggcttcaaa---ttaatgtagtaatagtaccaatcacacaagtttaggaatttt
|||||||||||| ||||||||||| || || |||||||| || |  ||||| |||||||| |||||||| |||||||| ||| |||||||||| ||  ||||||||||||   || |||| |||  | || |  |  ||   | ||  | |  |  |    ||| | |||  | || |  |||||||  ||   |   ||   
TCCAGTGGACATTAAGACACCATATGAAAAAATGGTGGAGAATAGTGTTGAGTTTGGGTCGCCGGACAAAAGGTCTGGTGGCTTGCTCAATTCGGCTTTGgtaaggcactacagctgaaaaataaatttgttatacgtgtggtatttttaggctggatatcttagtatagggaaagcaataatcacatcagaacatagat---
















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|32926057|gb|CF030869.1|CF030869
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926564|gb|CF031376.1|CF031376
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925893|gb|CF030705.1|CF030705
EST:     CATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: CATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926389|gb|CF031201.1|CF031201
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32920740|gb|CF025552.1|CF025552
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925408|gb|CF030220.1|CF030220
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925076|gb|CF029888.1|CF029888
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32921801|gb|CF026613.1|CF026613
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925574|gb|CF030386.1|CF030386
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32929777|gb|CF034589.1|CF034589
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925209|gb|CF030021.1|CF030021
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926924|gb|CF031736.1|CF031736
EST:     AATNTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925914|gb|CF030726.1|CF030726
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926579|gb|CF031391.1|CF031391
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32921452|gb|CF026264.1|CF026264
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32924865|gb|CF029677.1|CF029677
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|211013709|gb|FL252303.1|FL252303
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCCTGCC
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCG-CCTGCC
EST: gi|32925973|gb|CF030785.1|CF030785
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTACAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32924793|gb|CF029605.1|CF029605
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925993|gb|CF030805.1|CF030805
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925153|gb|CF029965.1|CF029965
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926414|gb|CF031226.1|CF031226
EST:     AATTTGGGTCACCAGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925765|gb|CF030577.1|CF030577
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925463|gb|CF030275.1|CF030275
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926327|gb|CF031139.1|CF031139
EST:     AATTTGGGTCACCAGACAAGAGGTCTGGTGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926844|gb|CF031656.1|CF031656
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926278|gb|CF031090.1|CF031090
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925296|gb|CF030108.1|CF030108
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32921284|gb|CF026096.1|CF026096
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925438|gb|CF030250.1|CF030250
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32929308|gb|CF034120.1|CF034120
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926859|gb|CF031671.1|CF031671
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32929127|gb|CF033939.1|CF033939
EST:     GCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: GCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32925831|gb|CF030643.1|CF030643
EST:     AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
EST: gi|32926839|gb|CF031651.1|CF031651
EST:     AATTTGGGTCACCGGACAAGAGGTCTGNCGGCATGCTCAATTCTGCCCTG                         GTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA
genomic: AATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcact ... cattttgcagGTAGGTCTTATCTATGTTGTATTGATTGCGGTAGTTTTGCAGCGCCTGCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCAGTGGACATAAAGACACCATACGAGAAGATGGTGGAAAACATGGTTGAATTTGGGTCACCGGACAAGAGGTCTGGCGGCATGCTCAATTCTGCCCTGgtaaggcactcatgccgaaagatatttctgatgcaaatgcaatgttcgtggcttcaaattaatgtagtaatagtaccaatcacacaagtttaggaatttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG