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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgtaaagttttcatattttttgtcacgctgcagtccactagactattctaacacaatgttacag

Basic information

species Arabidopsis thaliana
transcript AT5G47770.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g50760.1 (Oryza sativa), 5'ss of exon 3
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgt-------aaagttttcatattttttgt-ca-cgctgcagtccactagactattctaacacaatgttacag----------------------------
|| ||||||||||| ||||||||||||||||||||||| ||||||   || || ||||| || ||||||||||| || || ||||||||       | |    ||||  ||| | | || |  |    |    || | | || |   | ||   ||                               
CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCTCAAACACGACGTGGCCAGCCTTGCTGGTTTAGGGTGCCTCAGgtcagtagcagaacaatcatcctttgtatgcatcaatttttttatatatattgtttttttataactgtatgaattataatccagaattgcacaggcattg

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os05g46580.1 (Oryza sativa), 5'ss of exon 4
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgtaa---agttttcatattttttgtc---acgctgca--gtccactagactattctaacacaatgttacag----------------------------------------------------------------------------
|| |||||||| || || |||||||||||||| |||||| | |||  |||||| |||||||| ||||| |||||  | || ||||||||     | | |  |  | |  | ||   | | ||||  | | | |    || |  |||| ||   | ||                                                                             
CTTCAAGCTTACTTTCTCGTGCTTGATGATATCATGGATGATTCTCACACTCGACGTGGTCAGCCTTGTTGGTTTCGGGTGCCTCAGgttggtgaatctgaaattgtcctatctgaatggtgcattgcctaattatttactgaaacaaaacact-cattttactttatagtacctttctttcacttgttacatatgaaactttatccctagtgccgccatttgttgcacaatag

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G147721_T01 (Zea mays), 5'ss of exon 3
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgt-------aaagttttcatattttttgtcacgctgcagtccactagactattctaacac--aatgttacag----------------------------
|| ||||||||||| ||||||||||||||||||||||| |||||    || || ||||| |||||||||||||| ||||| || |||||        |||  |  ||  |||||  |   |   | |        | |||||       |  |||  |                             
CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAACCTTGCTGGTTTAGAGTGCCACAGgttagatcagaagcatctatccttttttacttaccaaattatttctatcaattcttgttttgatggttgtactaaggtcttacactcttacttgataagt

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G098569_T01 (Zea mays), 5'ss of exon 3
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgtaaagttttcatattttttgtcacgctgcagtccactagactattctaacacaatgttacag-----------------------------------------
|| ||||||||||| ||||||||||||||||||||||| |||||    || || ||||| || ||||||||||| ||||| || ||||| |  |    |   | | |    |  |       || | | ||||   |   | | || |                                           
CTTCAAGCTTATTTTCTTGTGCTTGATGATATTATGGACAACTCCCAGACACGGCGTGGCCAGCCTTGCTGGTTTAGAGTGCCACAGgttagatcaggagcgtctat----cctttttacttaccaaattatttctattgattcttgctttgatggctgtactaagtcttacactctcacttgggaagttt

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G168681_T01 (Zea mays), 5'ss of exon 4
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgtaaagttt-tcatattttttgtcacgctgcagtccactagactattctaacacaatgttacag----------------------------------------------------------
|| || ||||  || ||||||||||||||||| |||||| |||||  |||||| || || || |||||||||||||| || |||||||| |   ||     ||       ||     | ||    |   || |      ||   | | |||                                                          
CTTCAGGCTTTCTTTCTTGTGCTTGATGATATCATGGATGACTCTCACACTCGTCGCGGCCAGCCTTGCTGGTTCAGGGTGCCTCAGgttagtcttactgaataccaaagcatttctctgttttttcccctgtgtagttacttcggtgcagagaaatttcgaattctctttttcaagtgatagctaagggtggatttcgtttgaaatag

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G12780.1 (Glycine max), 5'ss of exon 4
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgt--aaagttttcatattttttgtcacgctgcagtc--cactagactattctaacacaatg-ttacag--------------------
|| || || ||||| ||||| |||||||| |||||||||||||||  ||| ||||||||||| || |||||||| ||||| ||  ||||    ||     |||   | || ||   ||   ||   |    ||| || | | | |    |||                       
CTTCAGGCATATTTTCTTGTTCTTGATGACATTATGGATAACTCTCACACACGCCGTGGTCAGCCATGCTGGTTTAGAGTGCCCAAGgtttgtagaaagaataacatgtgccattttgttatctttatgctactgttgtgataaagcaattatctctagttacggtatggtgtag

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G01820.3 (Glycine max), 5'ss of exon 4
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgt-------aaagttttcatat---------tttttgtcacgctgcagtc--cactagactattctaacacaatgttacag-------
|| || || ||||| ||||| |||||||| |||||||||||||||  ||| ||||| || || || |||||||| ||||| ||  ||||       ||| |   ||| |         || |  | | ||||| ||    |  |    ||| |  |  | |  |  |        
CTTCAGGCATATTTTCTTGTTCTTGATGACATTATGGATAACTCTCACACACGCCGCGGCCAGCCATGCTGGTTTAGAGTGCCCAAGgtttgtagaaaaataaacatgtgccattgtgttatcttaatgctgctgttgggataaagtaattatctctaattactgtatggtgtag

upper sequence: AT5G47770.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv19s0015g01010.t01 (Vitis vinifera), 5'ss of exon 4
CTCCAAGCTTATTTCCTTGTGCTTGATGATATTATGGATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgt--------aaagttttcatattttttgtcacgctgca-----gtccactag-actattctaacacaatgttacag-----------------------
|| ||||| |||||||||||||||||||||||||||||||||||    || || || |||||||||||||||||||| |||||  ||||        | |||   | | |||||  | ||  ||||     ||   | |   | | | | | | | ||    |                        
CTTCAAGCATATTTCCTTGTGCTTGATGATATTATGGATAACTCGCATACACGTCGAGGTCAACCTTGCTGGTTCAGGGTTCCCAAGgtgcaagcctatagtgaccctttttttctttacagtgcaagcatgtttgcaattgccactttgataaagtgaagtactaactttcttagatttgtcttag

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|124795995|gb|EH885674.1|EH885674
EST:     ATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAG                         GTTGGTATGGTTG
genomic: ATAACTCTGTCACTCGCCGTGGTCAACCTTGCTGGTTCAGAGTTCCTCAGgtaaagtttt ... aatgttacagGTTGGTATGGTTG