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'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaaccccccataactctccctaacattttatccttttgtctggcaaagttgagaacttgtatgaaggattgggaatatgtgcagttatttatgga...

Basic information

species Zea mays
transcript GRMZM2G165418_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 8
ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaaccc--cccataactctccc---taacattttatccttttgt-ctggcaa-agttgagaacttgtatgaaggattgggaatatg---tgcagttatttatgga------------------------------------------------------------
| ||| | ||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||||||  |||||||||||||||| || ||||||||||  |  |  ||  || |  |    |||||||||||| | ||| ||||    ||| | | |||| | |  | | |||||| |  |   ||||     || |  |                                                            
ACCCAACTCATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCTGCGACAATCAGCTTTGTGTGACAACCATTCCAAGATgttagtaattcatcttatgccttttacctgcaacattttatccgtgtgtactggaggtagtcgtggacttcttttgacggttgggacttggggctgcataagattctctattctatactagtaatagaatgtcacaatatcagcatgagataacaagaacctttaaacag

upper sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA08G20830.2 (Glycine max), 5'ss of exon 8
ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttag-taacccccca----------taactctccctaacattttatccttttgtctggcaaagttgagaacttgtatgaaggattgggaatatgtgcagttatttatgga
| ||  | |||||||||||| |||| ||||| |||||||||||||| || || ||| ||||  |||| || |||||| | |||||    ||| | ||| ||| || | ||                |   | ||| ||    ||   |||      |  ||||||||||    |    |||  |||      | ||  |            
ACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGCATTATGTGATTCTCATGCCAAACTgtaagcttacattttgcttatgttatttgttttccttatggcttacacctaacaagtaacaaagttgaggttattggggaaaaattaaagggaagtagat-----------

upper sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA15G02640.1 (Glycine max), 5'ss of exon 8
ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacccccc-----ataactct------ccctaacattttatccttttgtctggcaaagttgagaacttgtatgaaggattgggaatatgtgcagttatttatgga
| ||  | |||||||||||  |||| ||||| |||||||||||||| || || ||| ||||  |||| ||||||||| | |||||    ||| | ||| ||| ||||    |       ||||   |       ||| |||  |   || ||  ||    || | |   |  || ||  ||   ||   |   |   |||           
ACCCTACACATTGTAATACGTTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGACAATCAGCATTATGTGATTCTCATGCTAAACTgtaagtacattcttttgttataatcttgttggttcctgacaagtatcccattcctcccataaggctttcagattttaacaaatgtttaaacagttgacag-----------

upper sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 8
ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaaccccccataactctccctaacattttatccttttgtctggcaaagttgagaacttgtatgaaggattgggaatatgtgcagttatttatgga-------
| ||  | |||||||||||| |||| ||||| |||||||||||||| ||||| ||| ||||  |||| ||||||||| | |||||    ||| | ||| ||| ||||    |   |     |  ||   |||   ||||   |  |     |    |   ||   || | |  ||  |    | | ||| | || |   |       
ACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATCCGTCTTGTTGACTTGCGGCAATCAGCATTATGTGATTCTCATGCCAAACTgtaagtacattcttttgtggttatct--tattcgttcctgacgaataa-gtatcccattcctcccataaggctttcag----tcttcagattttaacaaatgttgaa

upper sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 8
ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaac-cccccataactctccctaacattttatccttttgtctggcaaagttgagaacttgtatgaaggattgggaatatgtgcagttatttatgga-----------------------------------------------------------------------------------------
||||   |||||||||||  || || |||||||||||||| || || || ||  | |||||| ||||||||||||| ||||||||    ||| | ||| ||| |||      | ||| |  ||   |   |  |  |  ||   | |  |||   |    ||||  |  | ||  |  ||||| |||   | ||||                                                                                              
ATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGCTCTGTGTGATTCTCATACGAAATTgtaagttctgttctcatcatcctttatcggaaatggtagttgcatgtttcaa---tatatactta-agaaggggatatgaatacgtgggttcatttccaatttttctcttttcttgtcagaaatgacttggaaatgaagattaataggctaaagtttctgaccactgaccattgttgcttcatatcacag

upper sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 8
ATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaaccccccataactctccctaacattttatccttttgtctggca-aagttgagaacttgtatgaaggattgggaatatgtg-cagttatttatgga
| ||  |||||||||| |   | || |||||||||||||| || || ||||| |||| |||| |||| || ||||||||||||||    ||||| ||| ||| |||  |   |  |   | |    |   || | |  |||  | || |  ||  | | |   |   |||||||  |  |  |  || || |    ||    
ACCCTACCCATTGTAACATGTTAGCATATAGTAGTTCAAAAGGCTCAATCCGCCTTAATGATTTGCGACAGTCAGCACTGTGTGATTCTCATTCTAAATTgtgagtggcttgc--ttgttttagtcatttttattttttttcatttgtcttaaaataatataataggtgaaggagagaaatcaaatggcaatagaataactc

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|31352864|gb|CD437221.1|CD437221
EST:     CGACTTATTGATCTGCGCCAATCAGCACTGTGTGACAACCATTCAAAAAT                         ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
genomic: CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacc ... ctaaaaacagATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
EST: gi|211384024|gb|FL015619.1|FL015619
EST:     CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAAT                         ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
genomic: CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacc ... ctaaaaacagATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
EST: gi|24934206|gb|CA452424.1|CA452424
EST:     CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAAT                         ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
genomic: CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacc ... ctaaaaacagATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
EST: gi|211386654|gb|FL015627.1|FL015627
EST:     CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAAT                         ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
genomic: CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacc ... ctaaaaacagATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
EST: gi|211386649|gb|FL015622.1|FL015622
EST:     CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAAT                         ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
genomic: CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacc ... ctaaaaacagATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
EST: gi|67025874|gb|CO454623.1|CO454623
EST:     CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAAT                         ATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT
genomic: CGACTTATTGATCTGCGTCAATCAGCACTGTGTGACAACCATTCAAAAATgttagtaacc ... ctaaaaacagATTTGAGGAACATGAAGCACCTGGATCAAGATCCTTCTTTACAGAAATTAT