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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataatactcaaacttggtatcttccttcaaagatttaggctttttgagttctgatttctggtttcaattggtgtag

Basic information

species Arabidopsis thaliana
transcript AT4G14680.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G051270_T02 (Zea mays), 5'ss of exon 4
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataatactcaaacttggtatcttccttcaaagatttagg---ctttttgagttctgatttctggtttcaattggtgtag-------------------------------------------------------------------------------------------------
 ||||||  ||||||| | || || || |||||||| ||||||||||| ||| | |||||||||||||| |||||  | |||||||| |||||||||| |||||   |||     | |   |   |||   |||   ||   | | ||  || | |     | | |||   || |  || |  ||   ||   |  |                                                                                                  
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCACGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgc-catccttcctgaccagatctcttccttc-catgcacatccagtgagtaaaagaacgtattgcaatcagcatttttcttcacatctatacacatgtcaatctttgatgttttttagttatcaagaaaatagaaagatttattgtttgtctgttttcttgacatttttcttgtctgttattccggatcag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G302080_T01 (Zea mays), 5'ss of exon 10
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataatactcaaacttggtatcttccttcaaagatttagg---ctttttgagttctgatttctggtttcaattggtgtag-------------------------------------------------------------------------------------------------
 ||||||  |||||||   || || || |||||||| ||||||||||| ||| | |||||||||||||| |||||  | |||||||| |||||||||| |||||   |||     | |   |   |||   |||   ||   | | ||  || | |     | | |||   |  |  || |  ||   ||   |  |                                                                                                  
CCATCCCACGGAGAAAATGGACCTCTATGATGCTGACCACGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgc-catccttcctgaccagatctcttccttc-catgcacatccagtgagtaaaagaacgtattgcaattagcatttttcttcacatctatacacatgtcaatctttgatgttttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattctggatcag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G088348_T01 (Zea mays), 5'ss of exon 10
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataatactcaaacttggtatcttccttcaaagatttagg---ctttttgagttctgatttctggtttcaattggtgtag------------------------------------------------------------------------------------------------
 ||||||  ||||||| | || || || |||||||| || |||||||| ||| | |||||||||||||| |||||  | |||||||| |||||||||| |||||   |||     | |   |   |||   |||   ||   | | ||  || | |     | | |||   |  |  || |  ||   ||   |  |                                                                                                 
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCATGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgc-catccttcctgaccagatctcttccttc-catgcacatccagtgagtaaaagaacgtattgcaattagcatttttcttcacatctatacacatgtcaatctttgatgtttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattccggatcag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G149952_T01 (Zea mays), 5'ss of exon 3
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatat--tcataga-aaccgcataatactcaaacttggtatcttccttcaa-agatttaggctttttgagttctgatttctggtttcaattggtgtag-
 || |||   |||||| | || || || |||||||||||||| ||||| ||| | |||||||||||||| || ||  | |||||||| |||||||||| ||||| |  || ||    |||  ||  |  ||   |   | || | |  | |  |||      | | |||   |     || || |    ||   |  |  
CCACCCCACAGAGAAAAGGGACCTCTATGATGCTGATCACGGAAAGAAGGTTTTGAGCATGGCTCCTGGCCTTGAGAGGCTCAACATCCTTCCTTTCAAGgtatgtcatcctatctgaccagatttttttctttccatgcatatgcagtgagtagaaaacaacatattgcaattaacattttgctgcacatctttacaca

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G089359_T01 (Zea mays), 5'ss of exon 1
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtat---attcatagaaaccgcataatactcaaacttg-gtatct--tccttcaaagatttaggctttttgagttctgatttctggtttcaattggtgtag------------------------------------------------------------------------------------------
 ||||||  ||||||| | || || || |||||||| |||| |||||| ||| | |||||||||||||| |||||  | |||||||| |||||||||| |||||   || | |    |||  ||      |   | ||   |||   |   | ||||| |         | ||   |   |||   | |  |    |||                                                                                            
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCACGAGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctcttcctttcatgcacatccagtgagtaaaagaatgtattgcaattagcattttcttcacatctatacacatgtcaatctttgatgtttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattccggatcag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataat--actcaaacttggtatcttccttcaaagatttaggct-ttttgagttctg-atttctggtttcaattggtgtag--
 ||||| || |||||| | |||||||| |||||||| || |||||||||||  | |||||||| || ||||| || || || |||||||||||||||||||||  |    |    ||   | ||      |||||  ||    | |       | ||||||   |||||  | ||  ||  |  |||  |||  | |    
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgagaatttgccttctcattagtataaactgagtgaagttc-------acttaggccactttgaaatatgtgttgatcattttcattcatttgcag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G38760.1 (Glycine max), 5'ss of exon 3
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataatactcaaacttggt-atcttccttcaaagatttaggctttttgagttctgatttctggtttcaattggt-gtag
 ||||| || |||||| | |||||||| |||||||| || || ||||||||  | |||||||| || ||||| || || || |||||||||||||||||||||  |    |    ||   | ||    | |||  || |  |||  | |      |  | | | || |||  |||      ||||| |   |   ||
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGAAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgagaatttgccttctcattaatacactgagtgaagttcacttaggccactttgatatatgtgtt--gatgatcattttcattcatttacag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 5'ss of exon 3
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatat---tcatagaaac-cgcataatactcaaacttggtatcttccttcaaagatttaggctttttgagttctgatttctggtttcaattggtgtag
 || || || |||||  | ||  | || |||||||| || |||||||| ||  | ||||||||||||||||| ||||| || ||||| |||||||||| |||||||     || | | | |  || | ||||||| ||| | || |  || |   ||  |  || |  || |    | ||  ||| | |||||  |   
CCACCCAGTTGAGAAGAGAGACTTATATGATGCTGACCATGGGAAGAAGGTATTGAGCATGGCTCCTGGACTGGAACGGCTAAACATCCTTCCTTTCAAGgtatataaactattgtagctcttatgaaactcaaaattgctttcctgtttaatttatgaaatctgtaggattcacaagttgaggtat-aattgcag---

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ32830 (Selaginella moellendorffii), 5'ss of exon 3
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgta-tattcatagaaaccgcataatactcaaacttggtatcttccttcaaagatttaggctttttgagttctgatttctggtttcaattggtgtag
 || ||| | || |||||||||||||| || || || |||||||||   ||||| ||||||||||||||| | || ||  | ||||| |||||||||||||||   ||| |     |     | |     ||  |   |||||  |      | ||     |||||  ||| |                       
ACACCCCATTGAAAAACGTGATCTGTATGACGCGGACCACGGGAAGCTGGTTCTCAGCATGGCTCCTGGATTGGAGCGCTTGAACATCCTTCCTTTCAGGgtaacgttcctttgtgctcgtgagttgcggaaactaacatcttgttc-----acttc--tcttttggattcag-----------------------

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ22935 (Selaginella moellendorffii), 5'ss of exon 3
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgta-tattcatagaaaccgcataatactcaaacttggtatcttccttcaaagatttaggctttttgagttctgatttctggtttcaattggtgtag
 || ||| | || |||||||||||||| || || || |||||||||   ||||| ||||||||||||||| | || ||  | ||||| |||||||||||||||   ||| |     |     | |     ||  |  ||||||  |      | ||     |||||  ||| |                       
ACACCCCATTGAAAAACGTGATCTGTATGACGCGGACCACGGGAAGCTGGTTCTCAGCATGGCTCCTGGATTGGAGCGCTTGAACATCCTTCCTTTCAGGgtaacgttcctttgtgctcgtgagttgcggaaactaatatcttgttc-----acttc--tcttttggattcag-----------------------

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|47830057|gb|CK119741.1|CK119741
EST:     TTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGG                         GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCA
genomic: TTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcat ... attggtgtagGTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCA