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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatacatgtctccccccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag

Basic information

species Zea mays
transcript GRMZM2G126858_T01
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os04g52640.1 (Oryza sativa), 5'ss of exon 22
TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatacatgtctccccccatatgtttaataattagtttccac--taatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag
||||||| |||| | | || |||||||| |||||||||||||| |||||||||||||| || || | ||| ||||||||||||||||||||||||||||||||||   || |     |  |    | | ||| | ||  | |  | |   ||||| |       |   |||      | | |||      |   ||   |                                                                                  
TACTTGACGCCAATCTCAATCCTAAGATCTCGGATTTCGGGCTAGCCAAACTTTATGATGACAAGATGACTCATGTTAGCACAAAAGTTGCTGGTACATTgtaagtatattccatctttgcattttttcttttaaaaaaaataactattttaatggcatgcaagaaataagaggacatcctcttaaggggcaaaaaaaag----------------------------------------------------------------------------------

upper sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os04g52630.1 (Oryza sativa), 5'ss of exon 20
TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatac-atgtctccc-cccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag
|||||||||||| | | || |||||||| || ||||||||||| |||||||||||||| || || || || ||||| ||||| ||||||||||||||||||||||  ||| | || | || | ||  | | ||||  || ||      |||||      ||||||||  |     ||||  || |  ||| |  |                                                                                       
TACTTGATGCCAATCTCAATCCTAAGATCTCAGATTTCGGGCTGGCCAAACTTTATGATGACAAGAAAACGCATGTCAGCACGAAAGTTGCTGGTACATTgtaagttcattccatctttctcacctttgtctttacaaactacggagtactaa------agctaatgaga----tttttggctctcctttgtccag--------------------------------------------------------------------------------------

upper sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os04g52606.2 (Oryza sativa), 5'ss of exon 19
TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatac-atgtctc-cccccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag
||||||| ||   | | || |||||||| || ||||| ||||| || ||||||||||| || || ||||| |||||||||||||||||||||||||| |||||||  ||| | || | || | ||   |||||||  ||||| ||||      |  ||| ||||| || |     || |  ||||  |||  |  ||                                                                                     
TACTTGACGCTTATCTCAATCCTAAGATCTCAGATTTTGGGCTAGCTAAACTTTATGATGACAAGAAGACGCATGTTAGCACAAAAGTTGCTGGTACCTTgtaagttcattccatctttcgcaccttcatgtttacaaattattttc-----gtacctgtgctaacggga----tttatggcttttcttttatctag-------------------------------------------------------------------------------------

upper sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os04g52600.1 (Oryza sativa), 5'ss of exon 22
TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatacatgtctccccccatatgtttaataatta-gtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag
||||||| |||| | | || |||||||| || ||||| ||||| |||||||||||||| || || ||||| ||||| ||||| ||||||||||||||||||||||  |||            |||| ||||  |   ||| |||| || | || | |  | |||||| |     ||||   | |  ||| |  |                                                                                       
TACTTGACGCCAATCTCAATCCTAAGATCTCAGATTTTGGGCTAGCCAAACTTTATGATGACAAGAAGACGCATGTCAGCACGAAAGTTGCTGGTACATTgtaagtacat-----------tccatctgttccacctttatgtttacaatcatatttatgttaatggta----tttttgggtatcctttgtccag--------------------------------------------------------------------------------------

upper sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os04g52614.1 (Oryza sativa), 5'ss of exon 19
TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatacatgtctccccccatatgttta-ataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag----------
                                                                                                                  ||   |   ||  ||  ||    || ||   |||   ||| | |||  | | || ||  |||| || || |  |  |   | |||  |  ||  | | |      | |     | | | | |  |||  |||   | |||| |  ||| |   |||  | | |              
----------------------------------------------------------------------------------------------------------------CGGTTATCTTGCACCTGAGTACGCCATGAGAGGCCAT--ATGACCGAGAAAGTTGACGT--CTTTGCATTTGGCGTGgtcttattggagacttt--agccggacggccaaactatgatgatacgcttgaagaagacaaaatttatattttcgacatgggtaagctcagcagctcactta

upper sequence: GRMZM2G126858_T01 (Zea mays), 5'ss of exon 20
lower sequence: LOC_Os04g52614.1 (Oryza sativa), 5'ss of exon 18
TACTTGATGCCACTTTGAACCCTAAGATTTCGGATTTCGGGCTCGCCAAACTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcatacatgtctccccccatatgt-ttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagtggctatctttcacctgagtacgccatgagaggtcacatgactgagaaagttgatatttttgcttttggtgtggtcatgttggag
|| |||| |||| | | || |||||||| || ||||| ||||| |||||||||||||| || || ||||| ||||| ||||| || |||||||| ||||||||||  ||| | |   | ||| | | | | || | ||||  ||||     ||   |  | |   ||  | |  ||||  || |  ||| |  |                                                                                       
TAATTGACGCCAATCTCAATCCTAAGATCTCTGATTTTGGGCTAGCCAAACTTTATGATGACAAGAAGACGCATGTCAGCACGAAGGTTGCTGGCACATTgtaagtacattccttctttcccacctttatgtttacaatt--tttc-----atacttatgttggcggtggctt-ttttggctctcctttgtccag--------------------------------------------------------------------------------------

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|74246488|gb|DT654402.1|DT654402
EST:     CTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATT                         ATTATTGCTGGAAGGCCGAACTATGATGGTAAGCTTGACCAAGACATGGCT
genomic: CTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcat ... catgttggagATTATTGCTGGAAGGCCGAACTATGATGGTAAGCTTGACCAAGACATGGCT