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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctccaatttcaccttttgattccgagtttggggtttagttgcgttaaattagagtgaaacccttttacttgcgagattgctctttggtttcc...

Basic information

species Arabidopsis thaliana
transcript AT5G63440.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os07g19470.1 (Oryza sativa), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttct---ccaatttcaccttttgattccgagtttggggtttagttgcgttaaattagagtgaaacccttttacttgcgagattgctctttggtttcc
|| ||||||||||| ||||||||||||  |||||| || ||||| || || |||||||| ||||||||||| ||||| |  || || ||||| ||||| |||  | ||||   ||  |  | ||| ||  || |   ||| |||        | |    || |    | | |  |    |||| | |||  |    | |    
ACGCACACGTACTCCAGCGAGGACGCCCTGCCGGAGGGGCCCGAGTCCGACCTCTTCGTCTACTACTGCAAGCACTGCGCCTCCCACGTCCTCATCACCGgtcagcttctttccccctccctcctgttcgtttccccttttggggaattccccttcttgttcgcccaagagc--tcaggttgctaaatt-ttaccagatccgt

upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G099547_T04 (Zea mays), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctccaatttcac-cttttgattc---cgagtttgg-ggtttagttgcgttaaattagagtgaaacccttttacttgcgagattgctctttggtttcc
|||||||| |||||||||||||||||   |||||| || ||||| || || || ||||||||||||||||| ||||| |  || |||||||| ||||| |||  | | ||||     ||  |  || |||    |   | |||  || |  | |   | ||     ||     ||||  | |   | |   | |  |  | |   
ACACACACCTACTCGAGCGAGGACGCACTGCCGGAGGGCCCCGAGTCCGACCTTTTCGTATACTACTGCAAGCACTGCGCCTCACATGTCCTCATCACCGgtcagctcctcctcccccattcgcttaattttctcagatctggtagtctgctaggaattaagggaggttgggtccttaaattcaagcggaagat--tcagct---

upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA20G39320.3 (Glycine max), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctccaatttcaccttttgattccgagtttggggtttagttgcgttaaattagagtgaaacccttttacttgcgagattgctctttggtttcc
|| ||||| ||||| |||||||| || || ||||| || ||  |||| |||||||| ||||| ||||||||||| || || || |||||||| || || |||  ||        | | |  |  | |||| || |    |  |   |       |||          |||| ||   |   ||                 
ACGCACACATACTCAAGCGAGGATGCAGCTCCGGAGGGTCCTCACTCCGATCTCTTTGTATATTACTGCAAACATTGCGGATCCCATGTCCTCATAACAGgtatgt-------gtgtgatgtgattattctgaatgaatgaatccctaatccctaatc---------ccctcttgtctcgcag-----------------

upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv17s0000g01530.t01 (Vitis vinifera), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctccaatttcaccttttgattccgagtttggggtttagttgcgt-taaattagagtgaaacccttttacttgcgagattgctctttggtttcc-
|| ||||| ||||||||||| |||||||| || ||||| || || || ||||||||||| ||||| ||||| |||||||| ||||||||||| |||||||||| |||    |  |  ||  ||||| || |    || | ||||||  |  | | || ||   ||       || | |     || ||     ||| || | 
ACGCACACCTACTCGAGCGAAGACGCCGCCCCAGATGGCCCTGAGTCCGATCTCTTCGTCTACTATTGCAAGCACTGTGGATCTCATGTCCTCATCACTGgttggttctctctctaccattttttgttttctg--tttgtgtttagcggtttatgaactacgatggctgtagttaattctgttgactgtgaactgggtttcg

upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S3_299V6.1 (Physcomitrella patens), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctccaatttcaccttttgattccgagtttggggtttagttgcgtta-aattagagtgaaacccttttacttgcgagattgctctttggtttcc-----
|| ||||||||||| |||||||| || || |||||||| || || ||||| || ||||| ||||||||||| || |||||| |||| ||| | ||||| ||| |     | |||   || ||  | |||     | ||| | || |||  | |   |||    |||  | | || | ||       |  |||| ||| |       
ACTCACACGTACTCCAGCGAGGATGCGGCACCGGATGGGCCAGAATCTGAGCTTTTCGTGTACTACTGCAAGCATTGTGGTGCTCACGTCTTGATCACGGgtgc-cgagtgcaacc-cagctcattattttccctctggcgcttcgttatgatgtgattttgttgatccacgttcattttt----cttttcttaggtgtattttag

upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ33913 (Selaginella moellendorffii), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctc-caatttcac-cttttgattccgagtttggggtttagtt---gcgttaaattagagtgaaacccttttacttgcgagattgctctttggtttcc
|| ||||||||||| ||||| ||||| || || ||||| |||||||| || |||| ||| ||||||||||| || || || ||||| || || ||||| |||    |   | |    | || || | ||    |       | | | | |   ||| ||  || |  |    | | ||| ||| |    |||| || | |     
ACGCACACGTACTCTAGCGAAGACGCTGCTCCCGATGGCCCCGACTCCGACCTCTACGTCTACTACTGCAAGCATTGCGGCTCTCACGTACTCATCACAGgtaatctcgccgcggcattacgctctagagattgttcgctagctatggctttcgcgatacgttcgcattgcccgcatttgctt-catctttgcgctgtcga----

upper sequence: AT5G63440.3 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ36938 (Selaginella moellendorffii), 5'ss of exon 1
ACACACACGTACTCGAGCGAGGACGCCGCGCCGGATGGACCCGACTCTGATCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGgttcgtttctccaatttcaccttttgattccgag-tttggggtttagttgcgttaaattagagtgaaacccttttacttgcgagattgctctttggtttcc------
|| ||||||||||| ||||| ||||| || || ||||| |||||||| || |||| ||| ||||||||||| || || || ||||| || || ||||| |||   | || ||       | ||  | |   ||| | |  || ||  | ||| ||  || |  |    | | ||| ||| ||   |||| || | | |         
ACGCACACGTACTCTAGCGAAGACGCTGCTCCCGATGGCCCCGACTCCGACCTCTACGTCTACTACTGCAAGCATTGCGGCTCTCACGTACTCATCACAGgta-atctcgccg---cggcattacgctctagagatctatggctt--tcgcgatacgttcgcattgcccgcatttgctt-cgtctttgcgctgtcgatcgatcagtc

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|19878734|gb|AU239565.1|AU239565
EST:     TCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGATACCCAG                  
genomic: TCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCAC---T-----Ggttcgtttct ... aga
EST: gi|116466797|gb|EG509389.1|EG509389
EST:     TCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCACTGATACCCAG                  
genomic: TCTCTTCGTATACTACTGCAAACACTGTGGTTCTCATGTCCTTATCAC---T-----Ggttcgtttct ... aga