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

TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttcttttcctttactctttacagaaatggtaatctcagatatagtaatggataagatccaaaaatgacacttttaaccaagattgtacgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag

Basic information

species Arabidopsis thaliana
transcript AT5G49720.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g52630.2 (Oryza sativa), 5'ss of exon 4
TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttcttttcctttactctttacagaaatggtaatctcagatatagtaatggataagatccaaaaatgacacttttaaccaagattgtacgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag
||||||||| ||||| ||||||||||| ||||| ||||| ||||| |||||||||| ||||||  | |||   || || ||  | ||||| || || ||||||  | ||  || ||  | ||||| | || | |   |    ||     |    | | | |  |  | |    | ||  || |      ||| |                                                                            
TCTATACAGCGATTACCTGGATGCTGCAGATACACCTGGGTGGTATTGTGGACCTACTTTCTACACTACAGAAGTCCTCCGCAAATTTGCAAGGTCACAGgtaaggttttgttgcccatgctcttga-agtagtcaaagctacattagcacagttcggtgaatttgacacccaaaacccttcaat----ttgcag---------------------------------------------------------------------------

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G02160.1 (Glycine max), 5'ss of exon 5
TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttcttttcctttactctttacagaaatggtaatctcagatatagtaatggataagatccaaaaatgacacttttaaccaagattgtacgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag
 ||||| ||||||||||| |||||||||||||| ||||||||||| |||||||||||||||| ||| ||    ||||| |||  |||||| |  |||||||| |   |  | |||   |||| || | ||| ||| |  |||  |  ||   | |       ||   |   |  ||||    |  | |  | |  |   || ||| |   |||   | | | ||||  ||                                        
CCTATATAGTGATTATCTTGATGCTGCTGATACACCTGGATGGTATTGTGGACCTAATTTCTTTTCAACCGACGTGCTCCGTAGCTTTGCCAAGTCCCAGgtgtg--tgatattctgctact-ttaagagagatgatg-tctatggcatcaaactcttcctaatgttatcgtatcact----atgaggtgtctgggctaatttttcttttctcttctgtgtgtttttgcag---------------------------------------

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G13080.1 (Glycine max), 5'ss of exon 5
TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttcttttcctttactctttacagaaatggtaatctcag-atatagtaatggataagatccaaaaatgacacttttaaccaagat-tgtacgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag
 || || ||||||||||| |||||||||||||| ||||||||||| |||||||||||||||| ||| ||   |||||| ||| | ||||| |   ||||||| |    | || | ||  ||| || | ||| ||| |       | ||  |    |   |||  |     ||||| |    |||      | || || ||  | | |||   ||    |   | ||||  ||                                        
CCTTTATAGTGATTATCTTGATGCTGCTGATACACCTGGATGGTATTGTGGACCTAATTTCTTTTCAACTGATGTGCTCCGTAATTTTGCCAAGACCCAGgtgtgtgatattgtgct--act-ttaagagagatgatgtctatggcatccaactcttcgtaatgtt----aatgatatcactaagaggtgtatggactaatttttcttttcccttttgtcggtgtttttgcag---------------------------------------

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G40090.1 (Glycine max), 5'ss of exon 3
TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttcttttcctttactctttacagaaatggtaatctcagatatagta-atggataagatccaaaaatgacacttt-taaccaagattgtacgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag
 || |||||||||||||| |||||||||||||| ||||||||||| |||||||| |||||||  || ||   ||| || || |||||||| |   |||||||   | | ||  |  | | |||   | |  |||  | ||    ||| || || | |  |  |  | || |||    || | |      |||| |                                                                             
CCTTTACAGTGATTATCTCGATGCTGCTGATACACCTGGATGGTATTGTGGACCCAATTTCTTCTCAACTGATGTTCTTCGAGACTTTGCAAAGACCCAGgtg--ggtgctagttttctgctcc--ataataataatgat----gatgtaatacaagtgtctgggctaataatctttctctgtcttggtgattttgtag-------------------------------------------------------------------------

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G00710.1 (Glycine max), 5'ss of exon 3
TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtat-tgcttcttttcctttactctttacagaaatggtaatctcagatatagtaatggataagatccaaaaatgacacttttaaccaagattgtacgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag
||| |||||||||||||| |||||||||||||| ||||||||||| |||||||| |||||||  |||||   ||| || || |||||||| |   |||||||   |||| |  | |   || |||   |   |||| ||||       ||  | |     ||     | || | |  |   |  |   | |      || ||||||||    ||| |||| | | | |                                           
TCTTTACAGTGATTATCTCGATGCTGCTGATACACCTGGATGGTATTGTGGACCCAATTTCTTCTCGACTGATGTCCTTCGAGACTTTGCAAAGACCCAGgtgggtgctacggtgctagtattctgctccttaatgataataattataattatgaaaagaaattcttacaagtcaagcggctgtctgggct-----aaatatctttttcttttcccttttctgtgtag-------------------------------------------

upper sequence: AT5G49720.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 5'ss of exon 5
TCTATACAGTGATTATCTGGATGCTGCTGATACTCCTGGATGGTACTGTGGACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttcttttcctttactctttacagaaatggtaatctcagatatagtaatggataagatccaaaaatgacacttttaaccaagattgt-acgaagatctttttaaactccattttttattttgacatctaaattggatttaactcggccttgctgtattttggcag
 || |||||||||||||| || |||||||| || ||||||||||| |||||||||||||||||||| ||    || || ||||| ||||| |   ||||||||| ||    | |  ||    ||  |   || | || |      | ||     ||   | |    || ||  |   ||  |||||| |  || ||  | || |||   | |||     |    | || ||                                        
CCTGTACAGTGATTATCTTGAAGCTGCTGACACCCCTGGATGGTATTGTGGACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtat-gcgatatctgattc---ctcaattaaagttgtgagg--gaacatgagtctgctcatgtagtaataaatattgttggaaccaacaaggtcacttaaatttttcatatctctgacct----tctggcag---------------------------------------

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|47830557|gb|CK120241.1|CK120241
EST:     GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAG                         ATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
genomic: GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttc ... attttggcagATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
EST: gi|124748993|gb|EH839123.1|EH839123
EST:     GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAG                         ATTGATTATATACTGGGTAAAAAACCCTCGGAAAATGAGTTATGTCGTTGG
genomic: GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttc ... attttggcagATTGATTATATACTGGGTAAAAA-CCCTCGGAAAATGAGTTATGTCGTTGG
EST: gi|116458640|gb|EG501232.1|EG501232
EST:     GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCAAGATCCCAG                         ATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
genomic: GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttc ... attttggcagATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
EST: gi|86039673|gb|DR335428.1|DR335428
EST:     CTAGATCCCAG                         ATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
genomic: CTAGATCCCAGgtattgcttc ... attttggcagATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
EST: gi|47829810|gb|CK119494.1|CK119494
EST:     GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAG                         ATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT
genomic: GACCTAATTTCTATTCGACAAGTGTGCTACGTGACTTTGCTAGATCCCAGgtattgcttc ... attttggcagATTGATTATATACTGGGTAAAAACCCTCGGAAAATGAGTTATGTCGTTGGT