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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattcagttctgtaacgtgctgggcaatagttaaacttaatattttcttttttgtgtgtgctgaggacttccaatttacatgcccttctcattctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATAGGAAGCACACCTGCATGTCATCAGATATAAGTGACCCTTCCACACCTAG

Basic information

species Zea mays
transcript GRMZM2G099754_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g02830.2 (Oryza sativa), 3'ss of exon 1
aattcagttctgtaacgtgctgggcaatagttaaacttaatatt--ttcttttttgtgtgtgctgaggacttccaatttacatgcccttctcattctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATAGGAAGCACACCTGCATGTCATCAGATATAAGTGACCCTTCCACACCTAG-----
       || | |   ||  ||  | | | ||     |||  ||  ||| ||| |   |   ||      |     ||    |     | ||||  ||||||||||||| ||||| ||||||||||| |||  |||||| ||   |||||| |||||||||||| |||| ||||||||||| ||||| ||||| ||||||||     
------cttttattttgt-ttgtacgagaatttctggtaaccttaattcgtttataccttaactattttttctttcttattgttgaaatgtcatcttctcagttcagCAGCTCCATTTGTTACAACATCCTGTCAAGAATGCTGTTGCAGAGAGGAAGCACACCCGCATCTCATCAGATATGAGTGATCCTTCAACACCTAGGAAAA

upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g02830.1 (Oryza sativa), 3'ss of exon 1
aattcagttctgtaacgtgctgggcaatagttaaacttaatatt--ttcttttttgtgtgtgctgaggacttccaatttacatgcccttctcattctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATAGGAAGCACACCTGCATGTCATCAGATATAAGTGACCCTTCCACACCTAG
  ||   || | |   ||  ||  | | | ||     |||  ||  ||| ||| |   |   ||      |     ||    |     | ||||  ||||||||||||| ||||| ||||||||||| |||  |||||| ||   |||||| |||||||||||| |||| ||||||||||| ||||| ||||| ||||||||
-cttgccttttattttgt-ttgtacgagaatttctggtaaccttaattcgtttataccttaactattttttctttcttattgttgaaatgtcatcttctcagTTCAGCAGCTCCATTTGTTACAACATCCTGTCAAGAATGCTGTTGCAGAGAGGAAGCACACCCGCATCTCATCAGATATGAGTGATCCTTCAACACCTAG

upper sequence: GRMZM2G099754_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 3'ss of exon 1
aattcagttctgtaacgtgctgggcaatagttaaacttaatatt--ttcttttttgtgtgtgctgaggacttccaatttacatgcccttctcattctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATAGGAAGCACACCTGCATGTCATCAGATATAAGTGACCCTTCCACACCTAG
  || | || | |    |  ||    | | || |   |||  ||  ||| |||||   |   ||      |     ||    |     | ||||  ||||||||||||| ||||| ||||||||||| |||  |||||| ||   |||||| |||||||| ||| |||| ||||||||||| ||||| ||||| ||||||||
-ttttatttttatcttata-tgtatgagaatttatggtaaccttaattcgtttttaccttgactattttttctttcttgttgttgaaatgtcatcttctcagTTCAGCAGCTCCATTTGTTACAACATCCTGTCAAGAATGCTGTTGCAGAGAGGAAGCATACCCGCATCTCATCAGATATGAGTGATCCTTCAACACCTAG

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|148991733|gb|EE033301.2|EE033301
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCCCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|149084321|gb|EE173759.2|EE173759
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211014131|gb|FL278354.1|FL278354
EST:     CAACTGCGGTACACGGGAGGAGAATGCCGTCGTTGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|93011916|gb|EB637436.1|EB637436
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|148990944|gb|EE032373.2|EE032373
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211016908|gb|FL278365.1|FL278365
EST:     CAACTGCGGTACACGGGAGGAGAATGCCGTCGTTGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211014135|gb|FL278358.1|FL278358
EST:     CAACTGCGGTACACGGGAGGAGAATGCCGTCGTTGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211014134|gb|FL278357.1|FL278357
EST:     AACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGGCA-G                         TTCAGCAACTTCACTTGTTACAACAGCCTTTCAAGAACGCCAATGGCAGA
genomic: AACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCG-CAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATG-CAGA
EST: gi|211014137|gb|FL278360.1|FL278360
EST:     CAACTGCGGTACACGGGAGGAGAATGCCGTCGTTGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|78105252|gb|DV523670.1|DV523670
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|32833257|gb|CD972935.1|CD972935
EST:     ACACGGGAGGAGAATGCCGTCGTTGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: ACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|31353226|gb|CD437583.1|CD437583
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|5268365|gb|AI770329.1|AI770329
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTTCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211014138|gb|FL278361.1|FL278361
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211016909|gb|FL278366.1|FL278366
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|76011907|gb|DT939077.1|DT939077
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|71429168|gb|DR810218.1|DR810218
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|93014899|gb|EB640419.1|EB640419
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTTAGCAACTCCCCTTGTTACA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACA
EST: gi|6021626|gb|AW066554.1|AW066554
EST:     ACTGCCGGCACACGGGNAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGNTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: ACTGC-GGCACACGGG-AGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|149038592|gb|EE155519.2|EE155519
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|148970123|gb|EE021063.2|EE021063
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|148962074|gb|EE012878.2|EE012878
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|9794788|gb|BE553096.1|BE553096
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         GTCAGCAACTCCACTTGGTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211014139|gb|FL278362.1|FL278362
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACA
EST: gi|148961265|gb|EE011986.2|EE011986
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|76910588|gb|DV163935.1|DV163935
EST:     CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
EST: gi|211016910|gb|FL278367.1|FL278367
EST:     CAACTGCGGCACACGGGAGGAGAATGTCGTCGTCGCTGCGCACGCGCAAG                         TTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA
genomic: CAACTGCGGCACACGGGAGGAGAATGCCGTCGTCGCTGCGCACGCGCAAGgtatccatct ... attctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttttgtgtgtgctgaggacttccaatttacatgcccttctcattctctcagTTCAGCAACTCCACTTGTTACAACAGCCTTCCAAGAACGCCAATGCAGATAGGAAGCACACCTGCATGTCATCAGATATAAGTGACCCTTCCACACCTAG
                                   tgcccttctcattctc  CT-rich tract
                           aatttacat  TA-rich tract