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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaagagaagctcgcaaagctacaatttttcgttcatttgtgtgaatttggatttaattccattctggctatattatagtaagacttgcaaatgatgcagGGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGTAGCGGGATACA

Basic information

species Arabidopsis thaliana
transcript AT1G08680.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08680.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ33278 (Selaginella moellendorffii), 3'ss of exon 3
gaaagagaagctcgcaaagctacaatttttcgttcatttgtgtgaatttggatttaattccattctggctatattatagtaagacttgcaaatgatgcagGGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGTAGCGGGATACA
                    |||| | ||    |   |||| |   | ||| |    |||  |  || | |   | |  |      ||  | |  | ||||| || ||||||||||||||||||||||  || || || |||||||||||| | ||  | ||
-------------------gtacagtcttc---ttgcttgtttctttctgggtc--gttctttgttgacaaggctcttttgg----tgtgatttttccagGGACCACAATATGTTTGCACAACTTTCTCAACTTTTGTGTGCATGGCTTGTGGTGGAGTCCA
















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|163979698|gb|ES130087.1|ES130087
EST:     CGTTGTATCAACTGCAATAGCCTT                         GGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGT
genomic: CGTTGTATCAACTGCAATAGCCTTgtaattttat ... aatgatgcagGGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGT
EST: gi|164040645|gb|ES155270.1|ES155270
EST:     CGTCGTTGTATCAACTGCAATAGCCTT                         GGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGT
genomic: CGTCGTTGTATCAACTGCAATAGCCTTgtaattttat ... aatgatgcagGGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttggatttaattccattctggctatattatagtaagacttgcaaatgatgcagGGCCCTCAATATGTTTGCACAACTTTCTGGACCTTCGTATGCATGGCTTGTAGCGGGATACA
      atttaat  putative branch site (score: 4)
                        tatattatagtaaga  TA-rich tract