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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgttttcgaataaaacataacaactccaattgagctttcaagtacctgtttcatcttatagtatgtatgtaccacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG

Basic information

species Arabidopsis thaliana
transcript AT2G19860.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G19860.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os05g45590.1 (Oryza sativa), 3'ss of exon 5
-------------gtttgtgttttcgaataaaacataacaactccaattg-agctttcaagtacctgtttcatcttatagtatgtatgtaccacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG
             ||| |  |     | |    |||    | | ||     |   || |  |   | ||     || |  |  |  | |          |||| || || ||||||||||| |||||||||||||| |||||||| ||||| || |  || ||  |  ||||||  || |||||||||||||||||||||
cattgtctgtactgttagcatgagtcacttgtgcatgtttagttcatccataagctttagatggtt-ttcagggttctcatcagcgtttgtgctgtcacagGTAATAAATATGGAATGGGGGAACTTCAGGTCATCCCATCTTCCTTTGACTGAATTTGATCAAGCATTAGATGCTGAAAGTTTGAATCCTGGTGAACAG

upper sequence: AT2G19860.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g53930.2 (Oryza sativa), 3'ss of exon 5
-------------------------------------gtttgtgt-tttcgaataaa---acataacaactccaattgagctttcaagtacctgtttcatc--------ttatagtatgta----tgtaccacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG-
                                     || | ||    | | |||||   |  || | ||| ||| |           |   |||  ||||        |||||  || |     | |   |  ||| ||||||| |||||||||||||||||||||| ||||  |   |||||     |||| |||||  |  |  | ||  | || ||||| || || || || ||| 
gttagtgactgatttcgttatacttgtagcattaaatgtctttgaaccttgtataaatgtatgtatccacttcaacttctgcactggatgattgtcacatcaattaatattataacatttggatctttggtatgatgaagGTGATTAACATGGAATGGGGAAACTTCAAGTCAGAAAGGCTTCCTCGTTCAGATTACGATAATGCCTTGGACTTTGAAAGTTTAAACCCAGGCGAGCAGG

upper sequence: AT2G19860.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g53930.1 (Oryza sativa), 3'ss of exon 5
-------------------------------------gtttgtgt-tttcgaataaa---acataacaactccaattgagctttcaagtacctgtttcatc--------ttatagtatgta----tgtaccacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG
                                     || | ||    | | |||||   |  || | ||| ||| |           |   |||  ||||        |||||  || |     | |   |  ||| ||||||| |||||||||||||||||||||| ||||  |   |||||     |||| |||||  |  |  | ||  | || ||||| || || || || |||
gttagtgactgatttcgttatacttgtagcattaaatgtctttgaaccttgtataaatgtatgtatccacttcaacttctgcactggatgattgtcacatcaattaatattataacatttggatctttggtatgatgaagGTGATTAACATGGAATGGGGAAACTTCAAGTCAGAAAGGCTTCCTCGTTCAGATTACGATAATGCCTTGGACTTTGAAAGTTTAAACCCAGGCGAGCAG

upper sequence: AT2G19860.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S401_23V6.1 (Physcomitrella patens), 3'ss of exon 4
gtttgtgttttcgaataaaacataac----aactccaattgagctt---------tcaagtacctgtttcatcttatagtatgtatgtaccacaat----gtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG
     || | |||  ||  | || ||    || | |   || | ||          || |||||  || |||   |    || ||||   |   |     | |||||||||| ||||| |||||||||||  ||||||||||| | ||   |||  |    ||  | |   | |||  ||| ||  |  |||| || ||| | 
---actgctctcgtgtaggatatgacttggaatttcgggtgggtttgaatattgaccacgtaccc-ttacataacaagtgatatatggttcctgaccttggcagGTGATCAATATGGAGTGGGGAAACTTTTGGTCATCACATTTGCCTCGGACCTATGTGGATGAGTTATTGGATAGCGAGAGCCTCCATCCAGGAGAATAT

upper sequence: AT2G19860.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 5
gtttgtgttttcgaataaaacataacaactccaattgagctttcaagtacctgtttcatcttatagtatgtatgtacca--caa-tgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG
                     |     | ||| | |     | |     ||| | |   |||||  ||        ||   ||| || |||||||||||||||||||||| |||||| |||| || || ||||||  |||  ||  |||| ||   || || |  || ||  | || || || || |||
-------------------gtaccgggaatcctacttgctctcc--tcccctatatatgcttatgctaacccgaggccggccaactgcagGTGATCAACATGGAATGGGGGAACTTCTGGTCCTCGCACCTTCCAAAGACCAAGGTCGACGACGACCTGGACGCGGACAGCGTCAACCCCGGAGATCAG

upper sequence: AT2G19860.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ26298 (Selaginella moellendorffii), 3'ss of exon 5
gtttgtgttttcgaataaaacataacaactccaattgagctttcaagtacctgtttcatctta-tagtatgtatgtaccacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG
                     |     | ||| | |     | |  |    | | |  |  |  ||    |       |  | || |||||||||||||||||||||| |||||| |||| || || ||||||  |||  ||   ||| ||   || || |  || ||  | || || || || |||
-------------------gtaccgggaatcctacttgctctcctcgcctatatatgcttatgctaacccgaggccggccaactgcagGTGATCAACATGGAATGGGGGAACTTCTGGTCCTCGCACCTTCCAAAGACCAAGGTTGACGACGACCTGGACGCGGACAGCGTCAACCCCGGAGATCAG

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|125093727|gb|EL151266.1|EL151266
EST:     CACATGCAATTCCCAAATGGCATGGTTTGCTACCCAAATCAGGAGAAATG                         GTGNTCAACATGGAATGGGGAAACTTCAGGTCAT
genomic: CACATGCAATTCCCAAATGGCATGGTTTGCTACCCAAATCAGGAGAAATGgtttgtgttt ... cacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgagctttcaagtacctgtttcatcttatagtatgtatgtaccacaatgtagGTGATCAACATGGAATGGGGAAACTTCAGGTCATCACATCTTCCATTGACAGAGTACGACCACTCTCTAGATGTCGATAGTTTGAATCCTGGTGAACAG
                            ttatagtat  TA-rich tract