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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagttttgattatgtgcatagttaatctcattcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA

Basic information

species Arabidopsis thaliana
transcript AT1G43190.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G43190.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA02G08870.2 (Glycine max), 3'ss of exon 6
gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagttttgattatgtgcatagttaatctcat-tcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
                                                 | | |      || ||    ||  |||   || | | | | |  | |     |||      |  || ||   | | ||||     | ||    ||||  || ||   |||||||| ||  |  |||| ||||||||||||||||| ||||| |||||||| || ||||| || |||||||| ||||||||||| |||||| | || || |
-------------------------------------------------gtttttattttaagct---ttctctgtaggttttgattatatgctataccggacac-----aaaatatgacaaatcaatcctgcgtattaatttgtt--ttgaattttagATGGCCAATGCTGCAGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTCGCAAATCTCA

upper sequence: AT1G43190.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA16G27970.1 (Glycine max), 3'ss of exon 10
gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagttttgattatgtgcatagttaatctcattcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
                                                              |  | | | ||      || || |||   |    | | | |    |  |  || |||  | | ||||   |  || |  | |   || ||   |||||||| ||  |  | || ||||||||||||||||| ||||| |||||||| || ||||| || |||||||| ||||||||||| |||||  | || || |
--------------------------------------------------------tttattttaagctttctcaatagttttttattatataagccat-accgaactcaaaaatatgctaaatcaatcctgtgttt-taatttgttttgaattttagATGGCCAATGCTGCGGCAATTGCAGCTGCCTTTGGGGGAGGTTTGCCTCCTGGCATAACTGGAACAAATGAAAGGTGTACAGTTCTTGTTGCAAATCTCA

upper sequence: AT1G43190.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA10G36770.1 (Glycine max), 3'ss of exon 11
gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagtt--ttgattatgtgcatagttaatctcattcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
                                                         ||   | |||  |  | ||  | |    ||| |     | | | ||| |    || ||   | |  |   ||     | ||| |  | ||  | ||  | |||||||||||  |  |||| ||||||||||||||||| |||||  ||||||| || ||||| || |||||||| ||||||||||| ||||| || || || |
-------------------------------------------------------ttcatcttttaatttt-tagtaaaat---gattacagacatggatgacaatgagatgctttcttcctgaaaaaacaatttacttattatttttttcaatta-tagATGGCAAATGCTGCAGCCATTGCAGCTGCCTTTGGGGGAGGTCTGCCTCCTGGAATAACTGGGACAAATGACAGGTGTACAGTTCTTGTATCAAATCTTA

upper sequence: AT1G43190.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA20G30820.1 (Glycine max), 3'ss of exon 12
gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagttttgattatgtgcatagttaatctcattcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
                                                         ||   | |||  |  | ||  | |  | |      |    |  ||     |   || | |    |   ||    | |    | || || |   ||   |||||||||||  |  |||| ||||||||||||||||| |||||  | ||||| || ||||| || |||||||| ||||||||||| ||||| || || || |
------------------------------------------------------tttcatcttttaatttt-tagtaaaatgattacagacatggatgacaatgagatgctttctttctgaaaacaaaacaagttacttactttttc---aattatagATGGCAAATGCTGCAGCCATTGCAGCTGCCTTTGGGGGAGGTCTACCTCCTGGAATAACTGGGACAAATGACAGGTGTACAGTTCTTGTATCAAATCTTA

upper sequence: AT1G43190.3 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 11
gtgggtaatacagagttttagcaactcttttttggtcaagatcggtcaagatatcgccagaatctaacctccttgtccattcttaatttcttttttcgttaacagttttgattatgtgcatagttaatctcattcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
                                                 || ||  |  ||   |||  |   | |  | | ||| ||  ||  ||  |      ||    |     ||||   |    | ||| ||       |  |||||| ||||||| | ||  | || || ||||| ||||||||||||||||| ||||| || || || |  || |||||||| |||||||| |||||||||||||| || |
-------------------------------------------------gaaatttctgga--ttaaattatatatttaattttagttgtttgatttctgtggtattgctgtcccaagcatgacttggat-attttt------ctttttaaaatctagATGCCCAATGCGTCTGCCATTGCTGCTGCCTTTGGAGGAGGTTTGCCCCCTGGAATTAGTGGGACAAATGACAGGTGTACTGTCCTTGTCTCTAATCTAA

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|125207497|gb|EL222451.1|EL222451
EST:     GGCATATCCTCAG                         ATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCG
genomic: GGCATATCCTCAGgtgggtaata ... taaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCG
EST: gi|47829251|gb|CK118935.1|CK118935
EST:     TGATACAGGAGTGGCATATCCTCAG                         ATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCG
genomic: TGATACAGGAGTGGCATATCCTCAGgtgggtaata ... taaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttgattatgtgcatagttaatctcattcttgtgctgttacttaaaaactagATGGCAAACACATCAGCGATTGCAGCTGCCTTTGGAGGAGGCTTGCCTCCGGGTATAACCGGCACAAATGATAGGTGTACAGTCCTTGTCTCTAACCTGA
                  agttaat  putative branch site (score: 4)
                                        ttacttaaaaacta  TA-rich tract