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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGCTGAGTTTCACTTCGACAATTCCCGAGGACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggctaaattgatattcaagttgctttcattgaaatgtttggtcaatatttggttttgcttgactgttattctgtgcttgggctcgattgatct...

Basic information

species Zea mays
transcript GRMZM2G313649_T06
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G313649_T05 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os10g28640.1 (Oryza sativa), 5'ss of exon 5
TGGGCTGAGTTTCACTTCGACAATTCCCGAGGACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggag--gctaaattgatattc----aagttgctttcattgaaatgtttggt-caatatttggtt-ttgcttgactgttattctgtgcttgggctcgattgatct
||| ||||||||||  || || ||||| ||||||||||| |||||| |||||||||| |||||||| |||||||| |||||||| || ||||| |||||||| ||||   ||  || ||||| ||    | | |   | | ||    |||||  | || |  ||| || || ||| | ||   |   |    |||  |          
TGGTCTGAGTTTCATATCAACTATTCCTGAGGACAAAGCAGTGGACTTATATGTGCTTGAGAGAGCATTGATTTCTATGCATTCATCATGTGGTGATGTGgtaaggaattgcataaatgatagtcccaaatgataactactttagtttgtttacttcactccttgattattacttaattgcattatggaatatggagtta--------
















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|76294398|gb|DV033966.1|DV033966
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|71427980|gb|DR809030.1|DR809030
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|32942234|gb|CF047053.1|CF047053
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|88748493|gb|DY532634.1|DY532634
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|71442372|gb|DR823422.1|DR823422
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|149084732|gb|EE174225.2|EE174225
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|71762245|gb|DR960182.1|DR960182
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|88748628|gb|DY532769.1|DY532769
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|60343573|gb|DN210546.1|DN210546
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|32836689|gb|CD976367.1|CD976367
EST:     ACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA
EST: gi|213182702|gb|FM195363.1|FM195363
EST:     ACAAAGCGNNNGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTG        
genomic: ATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggc ... gatgaaccagA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGCTGAGTTTCACTTCGACAATTCCCGAGGACAAAGCGGTGGACCTATATGTGCTAGAGAGAGCTTTGATTTCCATGCATTCGTCCTGTGGGGATGTGgtgaggaggctaaattgatattcaagttgctttcattgaaatgtttggtcaatatttggttttgcttgactgttattctgtgcttgggctcgattgatct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT