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

TTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgccttacaatctgagtcatgttcttgcttgcttgaacctggtatagtttgagaaaacattgaaaatgcgtcatatgttagtcctctttttcactgaacaaatgtctggttttctatccccctattccacag

Basic information

species Arabidopsis thaliana
transcript AT1G79530.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 5'ss of exon 5
TTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgccttacaatctgagtcatgttcttgcttgcttga-acctggtatagtttgagaaaacattgaaaatgcgtcatatgttagtcctctttttcactgaacaaatgtctggttttctatccccctattccacag
 ||||| || ||||| ||||||||||| || ||||||||    || ||||||||||| ||||| || || ||||| || ||||||||||| || ||||||||||| |     | |||  |   |      ||  | |  || | |||| |  |  ||     || || ||||    | | |||| ||        ||||    | |  |                               
GTTTGGGCGAATTGGGAGGTTGGTCCTGCGTATTGCAACCAGTAGAGATGATATTGAAGTTGTTGCTGTCAATGATCCTTTCATTGATGCTAAATACATGgtaagaaaatagttcaaattatttgcctacctcccatatttcataccttggttgcttcatttaatcaatgaa----cattatattttcaa-----ttttggggggatga-------------------------------

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G104632_T01 (Zea mays), 5'ss of exon 5
TTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgcc--ttacaatctgagtcatgttcttgcttgcttgaacctggtatagtttgagaaaacattgaaaatgcgtcatatgttagtcctctttttcactgaacaaatgtctggttttctatccccctattccacag
 ||||| |||||||| ||||||||||| || ||||||||    || ||||||||||| ||||| || ||||||||||| ||||||||||| |||||||||||||||| ||   ||   || |  || ||  | || |     | |   |      |||| |    |||   | |||| |  |  |   |||  | |||  || |                                     
GTTTGGGCGGATTGGCAGGTTGGTCCTGCGAATTGCAACCAGCAGAGATGATATTGAAGTTGTGGCTGTGAATGACCCTTTCATTGATGCTAAGTACATGgtaaggaagctaattcttattttggttataatatttcacatgtcagattctggacgtttcatttgaca---acaatgagctaattaagagttttgtttg-catt-------------------------------------

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G051004_T01 (Zea mays), 5'ss of exon 5
TTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgccttacaatctg--agtcatgttcttgcttgcttgaacctggtatagtttgagaaaacattgaaaatgcgtcatatgttagtcctctttttcactgaacaaatgtctggttttctatccccctattccacag
 ||||| |||||||| ||||||||||| || ||||||||    || || |||||||| ||||| || ||||||||||| ||| ||||||| |||||||||||||||  |    |  || |    || ||  | ||      || |   |      |||| |   ||||   | |||| |  |  |   ||| || |||| || |                                     
CTTTGGGCGGATTGGCAGGTTGGTCCTGCGAATTGCAACTAGCAGAGACGATATTGAAGTTGTGGCTGTGAATGACCCTTTCGTTGATGCTAAGTACATGgtaaggtagttaaattatttttttgttataatatttgaaatttcagattctggacgtttcatttaaca---acaatgagctaattaagagttct-ttttgcatt-------------------------------------

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 5'ss of exon 5
TTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgccttacaatctgagtcatgttcttgcttgcttgaacctggtatagtttgagaaaacattgaaaatgcgtcatatgttagtcctctttttcactgaacaaatgtctggttttctatccccctattccacag
||||||||| ||||||||||||||  | ||  | ||||| || |||||||||||||| || |||||||| ||||| |||||  |||||||||| ||||||||||||||   || |||| |      | |||||||        ||||        || ||||||  ||   |    |    || || | || || ||  | | | | | |   || ||                     
TTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACATGgtaaggat---ttgcaat-tagcctgtcttcttgcagatc---acct-------ctttagaaaatttttgga---tgatgaatttttggccactattgta-taatccagttcgtgttt---------------------

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|86039050|gb|DR334805.1|DR334805
EST:     ATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATG                         GCTTACATGTTGAAG
genomic: ATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgc ... tattccacagGCTTACATGTTGAAG
EST: gi|86039048|gb|DR334803.1|DR334803
EST:     ATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATG                         GCTTACATGTTGAAGTATGATTCTACTCATGGAAATTTCAAGGGAAGCATC
genomic: ATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACATGgtaaggatgc ... tattccacagGCTTACATGTTGAAGTATGATTCTACTCATGGAAATTTCAAGGGAAGCATC