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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAAGGAGAAGGCCCTAGTCGAGAAGAAGAAGTCCATCGAGAGCCGCAAGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgccgctcctaacctgcctgtagactattcgtgcggggtggttggtagggcttatgtgcggcatgccgttttcatcctcatggcctgtggaat...

Basic information

species Zea mays
transcript GRMZM2G094051_T06
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094051_T06 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g51630.2 (Oryza sativa), 5'ss of exon 2
GAAGAAGGAGAAGGCCCTAGTCGAGAAGAAGAAGTCCATCGAGAGCCGCAAGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgccgctcctaacctg---------cctgtagactattcgtgcggggtggttggtagggcttatgtgcggcatgccgttttcatcctcatggcctgtggaat
||  |||||||||||| | | |||||||||||||||||||||||||||||||||||||||| ||||||| ||||||||||||||||| ||||| |||||||| ||||||  |  ||  || ||         | | | ||   |   |   | ||||     |  ||   |  | || ||   | |||  | |||              
GAGCAAGGAGAAGGCCGTCGCCGAGAAGAAGAAGTCCATCGAGAGCCGCAAGCTCATCTTCTCCCGCGCCAAGCAGTACGCCGAGGAGTACGAGGCCCAGgttagatcgttggcccccacatgatccattcccgtctcgatgttatattttgcgtggcaaagacagcgattccgtgggatctgggtttggtactcccaaa---------

upper sequence: GRMZM2G094051_T06 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 5'ss of exon 2
GAAGAAGGAGAAGGCCCTAGTCGAGAAGAAGAAGTCCATCGAGAGCCGCAAGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcag-atcgccgctcctaacctgcctgtagactattcgtgcggggtggttggtagggcttatgtgcggcatgccgttttcatcctcatggcctgtggaat
 | |||||||||||| || | ||||||||||||| || ||||||||||||||||||||||| ||||||| |||||||||||| |||| ||||| || ||||| || |  ||  |  |    ||||| || || |    |  |   ||||    ||||  |  |  |         |  ||   | ||   || |   ||| 
CAGGAAGGAGAAGGCGCTCGCCGAGAAGAAGAAGGCCGTCGAGAGCCGCAAGCTCATCTTCGCCCGCGCCAAGCAGTACGCCCAGGAGTACGACGCGCAGgtgagcagagcaacctccccgctgcccgttgattcgcggaaccctgtggcgtctaggaatggttcgtttagatttgcgttgcgcatcgacgcatcgtgaa-
















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|211364904|gb|FL335329.1|FL335329
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211439886|gb|FL309186.1|FL309186
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211381235|gb|FL355200.1|FL355200
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211197410|gb|FL309893.1|FL309893
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211467480|gb|FL327940.1|FL327940
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211099200|gb|FL356880.1|FL356880
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211430944|gb|FL367566.1|FL367566
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211331288|gb|FL346026.1|FL346026
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGNTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|19350866|gb|BM895398.1|BM895398
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGCGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|76281808|gb|DV021376.1|DV021376
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211467080|gb|FL315617.1|FL315617
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGNTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211369599|gb|FL314676.1|FL314676
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTT
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTT
EST: gi|19350865|gb|BM895397.1|BM895397
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGCGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211425293|gb|FL350052.1|FL350052
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGWATACGATGCCCAG                         GAGAAGGAANTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211419805|gb|FL340213.1|FL340213
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGNTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211489662|gb|FL352063.1|FL352063
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|31558661|gb|CD527873.1|CD527873
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211522433|gb|FL327538.1|FL327538
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211262500|gb|FL327821.1|FL327821
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACT-GTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211430817|gb|FL361882.1|FL361882
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211489013|gb|FL325724.1|FL325724
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211365538|gb|FL366724.1|FL366724
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|18964888|gb|BM661267.1|BM661267
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTA-GCGCGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211479805|gb|FL307417.1|FL307417
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
EST: gi|211427800|gb|FL348316.1|FL348316
EST:     AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAG                         GAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC
genomic: AGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgc ... cttggagcagGAGAAGGAACTGGTGCAGCTTAAGCGTGAGGCCCGTTTGAAGGGTGGTTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAAGGAGAAGGCCCTAGTCGAGAAGAAGAAGTCCATCGAGAGCCGCAAGCTCATCTTCACCCGCGCAAAGCAGTACGCCGAGGAATACGATGCCCAGgtcagatcgccgctcctaacctgcctgtagactattcgtgcggggtggttggtagggcttatgtgcggcatgccgttttcatcctcatggcctgtggaat

- - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG