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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatccatctttccctcttacacgcctcgtggtacaaataacacgcctcgtcttttgaaattataaaagagtactactgtttgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACACCATGATTGAGTATTCCTACAATAATGGGCCTATTCAGAAAACACTGACCGCAG

Basic information

species Arabidopsis thaliana
transcript AT2G05990.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G05990.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G45990.1 (Glycine max), 3'ss of exon 11
----gtaa-tccatctttccctcttacacgcctcgtggta---caaataacacgcctcgtcttttgaaattataaaagagtactactgtttgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACACCATGATTGAGTATTCCTACAATAATGGGCCTATTCAGAAAACACTGACCGCAG
    | || |  |   || |||   |      |  | | |   ||   ||  |    |   ||   |||       |    | | || ||        |||||| ||||||||||| ||||||||||| ||||| ||||| ||||  |||||||| ||||| |  |  ||||  ||  | ||||||  |||    || |
aaatgcaagttaactctttccttcaaggtagatttttgcatgtcagtgaattcagtacaaattgataaacacgttgacttgaattcttttcaatggctagGTCCATTGGGAAGCCGTGCAGCAAAAGCAATTGGCTTCATTGACATGATGATTGACTATTCGTTTACCAATGCACCACTGCAGAAAGAACTACATGCTG

upper sequence: AT2G05990.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA18G31780.1 (Glycine max), 3'ss of exon 10
---gtaa-tccatctttccctcttacacgcctcgtggta---caaataacac-gcctcgtcttttgaaattataaaagagtactactgtttgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACACCATGATTGAGTATTCCTACAATAATGGGCCTATTCAGAAAACACTGACCGCAG-
   | || |  |   || |||   | | |  |  | | |   |||  ||  | |       |  | ||  | |  |   | | |  | |    |  | |||||| ||||||||||| ||||| ||||| ||||| ||||| ||||  |||||||| ||||| |  |  ||||  ||  | ||||||  |||    || | 
agtgcaagttaactctttccttcaagatggatttttgcatgtcaatgaattcagtagaaattgataaacatgttgacttgaattgttttcaatggct-aggTCCATTGGGAAGCCGTGCAGCGAAAGCGATTGGTTTCATTGACATGATGATTGACTATTCATTTACCAATGCACCACTGCAGAAAGAACTACATGCTGG
















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|124940242|gb|EL016709.1|EL016709
EST:     TTATGAAGCTGGAAGGAAATCAAACATTAGGGTCAACACCATCTCTGCGG                         GTCCTTTGGGAAGCCGAGCAGCAAAAG
genomic: -TATGAAGCTGGAAGGAAATCAAACATTAGGGTCAACACCATCTCTGCGGgtaatccatc ... tgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAG
EST: gi|125103472|gb|EL157868.1|EL157868
EST:     ATATGAAGCTGGAAGGAAATCAAACATTAGGGTCAACACCATCTCTGCGG                         GTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACA
genomic: ATATGAAGCTGGAAGGAAATCAAACATTAGGGTCAACACCATCTCTGCGGgtaatccatc ... tgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACA
EST: gi|47829300|gb|CK118984.1|CK118984
EST:     ATATGAAGCTGGAAGGAAATCAAACATTAGGGTCAACACCATCTCTGCGG                         GTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACACCATGA
genomic: ATATGAAGCTGGAAGGAAATCAAACATTAGGGTCAACACCATCTCTGCGGgtaatccatc ... tgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACACCATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataacacgcctcgtcttttgaaattataaaagagtactactgtttgggtttcagGTCCTTTGGGAAGCCGAGCAGCAAAAGCCATTGGGTTCATAGACACCATGATTGAGTATTCCTACAATAATGGGCCTATTCAGAAAACACTGACCGCAG
 aaataac  putative branch site (score: 2)
                ttttgaaattataaaa  TA-rich tract