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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagaacctgtgcatgtgtctgtgtgatgtagtgttgagcacactttggccaatggttaatagtagtcatatgttttgttttgtcagGCGCTGGACACATTCAACGCAGCAATTGTTTCTCCAATCTATTATGTGATGTTCACAACACTCACAATTGTCGCTAGTGCAATCATGTTCAAG

Basic information

species Arabidopsis thaliana
transcript AT4G38730.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38730.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S49_181V6.2 (Physcomitrella patens), 3'ss of exon 6
-----------------------------------gtaagaagaacctgtgcatgtgtctgtgtgatgtagtgttgagcacactttggccaatggtt--aatagtagtcatat----------gttttgttttgt-cagGCGCTGGACACATTCAACGCAGCAATTGTTTCTCCAATCTATTATGTGATGTTCACAACACTCACAATTGTCGCTAGTGCAATCATGTTCAAG
                                   || |   |||  |  ||  ||    ||||||  | |   ||  | |  ||||    ||| ||  ||  |||||   ||          ||  |    ||| ||||| ||||||||||| ||| | |||||||||||||| || ||||| || ||||||||| || | || ||  | || ||||| ||||||||||||
gtaataagcctagcgtgaataaccagcttgaagatgtcactcgaatttaagccagtaag-gtgtgaatttggtatgccctctttttgcttgatgttttgaagcgtagttggatcatgaagttggtactcacctgtgcagGCCCTGGACACATTTAACACGGCAATTGTTTCTCCTATATATTACGTCATGTTCACATCATTGACCATCCTGGCGAGTGCTATCATGTTCAAG
















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|86087863|gb|DR383622.1|DR383622
EST:     CCATGGTTGCAGCAATCTGTGTGGTTATGCAAATGATTTACCTCAACAAG                         GCGCTGGACACATTCAACGCAGCAATTGTTTCTCCAATCTATTATGTGATG
genomic: CCATGGTTGCAGCAATCTGTGTTGTTATGCAAATGATTTACCTCAACAAGgtaagaagaa ... gttttgtcagGCGCTGGACACATTCAACGCAGCAATTGTTTCTCCAATCTATTATGTGATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgagcacactttggccaatggttaatagtagtcatatgttttgttttgtcagGCGCTGGACACATTCAACGCAGCAATTGTTTCTCCAATCTATTATGTGATGTTCACAACACTCACAATTGTCGCTAGTGCAATCATGTTCAAG
                      ggttaat  putative branch site (score: 4)
                                         ttttgtttt  putative PPT
                                    atatgttttgtttt  TA-rich tract