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

gtaaccgaattacttatggttttactcacaatctaaacctaggagaaatggtgaaaactcattctgtcgaaaaatttctcagaaaagaacatgtgtggttagttcgaatactgaactttacaaggattgatgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGACTGCATCATGTTGCCTGATGCATAACCTACCCAAACCTTTTATCTCTTCT

Basic information

species Arabidopsis thaliana
transcript AT1G09430.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09430.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os12g37870.1 (Oryza sativa), 3'ss of exon 10
----------gtaaccgaattacttatggttttactcacaatctaaacctaggagaaatggtgaaaactcat-----tctgtcgaa----aaatttctcagaaa-agaacatgtgtggttagttcgaat-actgaactttacaag---gattgat--gattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGACTGCATCATGTTGCCTGATGCATAACCTACCCAAACCTTTTATCTCTTCT---
               | | ||||| ||| | || |    || || | |  ||           |  | | ||     |  |||  |    || ||| | ||| | || |||    |||    | |  || |    |    || ||    ||| |    ||||||||||||||| ||||||||||||||||| ||||| ||||| | ||||||||| |||||||||    |||| ||||||   |  |||   |||   || |||    
gtatggacctactggctacttact-atgttcttccagcaaaccttagctcagccatttcctacactatttatcagaattcgtcagagattaactttattagacataggacaccattggaccatccccatgatcataacggacgagctgaattcactgaattgcagGTATATGGACCAGAGGCAACAATGACTGGAATCTGCAAGCAAGCCATTGATTGCATCATGG---CTGAAGCATAATTCAGACAACTATTTGCGCTGTTCCCAG
















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|86087110|gb|DR382869.1|DR382869
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|125258875|gb|EL272960.1|EL272960
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGG
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGG
EST: gi|116442520|gb|EG485112.1|EG485112
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGCCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|125065456|gb|EL132680.1|EL132680
EST:     GAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|116442521|gb|EG485113.1|EG485113
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGCCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
EST: gi|86078164|gb|DR373921.1|DR373921
EST:     GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAG                         GTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC
genomic: GTTTGGCTAGAATGCGAGCTTTAGGAGAGGAACTTGGTGTCCCTCTAGAGgtaaccgaat ... atgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaacatgtgtggttagttcgaatactgaactttacaaggattgatgattgcagGTATATGGTCCAGAGGCAACAATGACGGGAATATGCAAACGAGCCATTGACTGCATCATGTTGCCTGATGCATAACCTACCCAAACCTTTTATCTCTTCT
                                        gattgat  putative branch site (score: 4)
                             aacttta  TA-rich tract