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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatgagaatttcatggaataaacttagcattgcctctttgtgatagttttgttgatgttttcattctttcttctgttttatag

Basic information

species Arabidopsis thaliana
transcript AT5G49460.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g19450.2 (Oryza sativa), 5'ss of exon 4
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatga-----gaatttcatggaataaacttagcattgcctctttgtgat----agttttgttgatgttttcattct----ttcttctgttttatag-------
 ||||| || || ||   ||| || ||||| || |||||||| |||||||||||||| ||| ||||||| ||||  |       ||| | | ||  |||     |||   |        |     ||| || || || |  | | |||    | || | | ||  |         
AATTGAAGCTGCCTGCAATGCACACCCAACTGCTGATGTATTTATCAACTTTGCATCCTTTCGGAGgttagttagcattctgatattcctttgagcaaaaaccacatgatcctagaacaactacaagtgttttttatttgcttaatctgcagtgctgccgcttcttcaatgtcag

upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g19450.1 (Oryza sativa), 5'ss of exon 4
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatgagaatttcatggaataaacttagcattgcctctttgtgatagttttgttgatgttttcattctttcttctgttttatag
 ||||| || || ||   ||| || ||||| || |||||||| |||||||||||||| ||| ||||||| ||||  |   |   ||    |  |   |  |   | |  |  |   |    |     ||||||   |  ||    |  | |  ||
AATTGAAGCTGCCTGCAATGCACACCCAACTGCTGATGTATTTATCAACTTTGCATCCTTTCGGAGgttagttagcattctgatattcctttgagcaaaaaccacatgatcctagaacaactacaagtgtttt---ttatttgcttaatctgcag

upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G15010.1 (Glycine max), 5'ss of exon 3
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatgagaatttcatggaataaactta-gcattgcctctt-tgtgatagttttgttgatgt-tttcattctttcttctgttttatag---------
|||||| |||||||||||||| ||||| || || ||||| |||||||||||||| || ||||| ||||  |  ||       ||||  ||||   | | | ||    | |  |||  |||   ||   |  | ||||||   || ||   || | |||         
CATTGAAGCAGCTTGTGCTGCACATCCTACTGCTGATGTCTTCATCAACTTTGCTTCATTTAGAAGgtgagcaattttg-catcataaaatattttaaagtatcttatatgatgttttaggagtgactacatatttcatgagttatttccttatttagttaggatta

upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G15020.1 (Glycine max), 5'ss of exon 4
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatgagaatttcatggaataaacttagcattgcctctttgtg-atagttttgttgatgttttcattctttcttc----tgttttatag------
|||||| |||||||||||||| ||||| || || ||||| |||||||||||||| || ||||| ||||  |  |      | | ||    |  | |      |  ||  |||   |    |   |  ||    | |   | ||         ||||| |       
CATTGAAGCAGCTTGTGCTGCACATCCTACTGCTGATGTCTTCATCAACTTTGCTTCATTTAGAAGgtcagcaaattatttattattattttgagtctatggtatcttgttgcacaataatacatgaataccattagcatatccagaaaagattttaaaatatcaa

upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G04000.1 (Glycine max), 5'ss of exon 4
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatgagaatttcatggaataaacttagcattgcctctttgtgatagttt-tgttgatgttttcattctttcttctgttttatag-----------
| |||| |||||||||||||| ||||| || || ||||| |||||||||||||| || ||||| ||||  |  |    | | | ||  |  ||    || |     ||  |   | | ||  |  | |   |||  |    |    | ||||| ||           
CGTTGAAGCAGCTTGTGCTGCACATCCTACTGCCGATGTCTTCATCAACTTTGCTTCATTTAGAAGgtcggcaa-attattattatacatgaataccagtagcatatccataaaagatttcatagtaacaattttgtatcattgaatattttagagtatcttatatg

upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G36840.1 (Glycine max), 5'ss of exon 5
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtt--tgttatgagaatt-tcatggaat--aaacttagcattgcctctttgtgatagttttgttgatgtt-ttcattctttcttctgttttatag
 ||||| |||||||||||||| || || || || ||||| |||||||| |||||||| ||||| |||||  || ||| |  ||| | ||    |  ||    || | |  ||  |||  || || |  |     |  ||   | |   | | |        
TATTGAAGCAGCTTGTGCTGCACACCCCACTGCTGATGTGTTCATCAATTTTGCATCATTTAGAAGgttgttgctatcattattgttattcctttcaactccaggagtatcttattg-aatggtatcatgagaatagtttgatatacttgcag--------

upper sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S46_63V6.4 (Physcomitrella patens), 5'ss of exon 4
CATTGAGGCAGCTTGTGCTGCGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgtta----tgagaatttcatggaataa-acttag---cattgcctctttg-tgatagttttgtt--gatgttttcatt--ctttcttctgttttatag
||||    | || ||    |  |||||||| || ||||| ||||||||||||||||||||| | |||| ||  |    ||   ||   |  || ||  | || |   ||| |  ||| || | ||    |   |  || ||| ||| |  | |||| ||  |  ||  
CATTCCATCTGCGTGCAAAGTTCATCCAACGGCAGATGTTTTCATCAACTTTGCATCTTTTCGCAGgtgtgcaaatgttgcctatacaaatgactagtattttgtgccatgggttctctgctaatgcgataaataggaagttatcaatatccttctgctactggat--

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|124754397|gb|EH844527.1|EH844527
EST:     CGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAG                         TGCTGCTGCTTCATCCATGGCTGCTTTGAAGCAGCCGACTA
genomic: CGCATCCAACAGCGGATGTATTCATCAACTTTGCATCTTTTAGGAGgtttgttatg ... tgttttatagTGCTGCTGCTTCATCCATGGCTGCTTTGAAGCAGCCGACTA