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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctacttaactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag

Basic information

species Arabidopsis thaliana
transcript AT1G36180.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os10g21910.1 (Oryza sativa), 5'ss of exon 4
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctactta-actatatcttttgatctcaatataactgatta---acttag---taatacgtgggatgttctttatatattg-tgtag-------
|| ||||||||||||||||| || || || || ||||||||||| || || ||||| ||||| || |||||||| |||||||| || || ||||| |   | ||||  |  | ||   ||   ||  || |      ||    | ||      |  |  |   ||| | |  |||||| | ||          
GTACATAATGATGATGAGGTGAGAGCACTGTTTAAGCAAGTTCAGGGAGAAGTCCCTGGCTCACCTATATTTATTATGAAGGTGGCATCTCAGgtgagaacaacttggagcacattgcttttcctttatttgttctgttgtgcatttgtatccaccatttaacatgctatccatatatagatgcctgttaagg

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 5'ss of exon 8
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctactt----aactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatat--tgtgtag----------
|||||||||||||||||||||||| |  |||| |||||||||||||| || || || || || || |||||||| |||| | | ||| | |||||   | ||  |     |  || | |||||    | |   | | | |||       || || | |  ||||||| ||| | |  | ||||           
GTTCATAATGATGATGAGGTTAGGACATTATTTAAGCAAGTTCAAGGCGAAGTACCTGGTTCCCCAATATTTATCATGAGGCTAGCTGCTCAGgtggggccttttatggaagttacaccttttcccttaatgttgagttattccggagttattatg-gttatgttctgtatgtttgatctgtaaattattgaaa

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G377341_T02 (Zea mays), 5'ss of exon 4
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctactt----aactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag-------------------------------------------------------
|||||||| ||||||||||| ||||| || ||||||||||||||||| || ||||| ||||| || |||||||| ||||| || || || ||||| |   ||  ||     | | | ||  ||| | |||      ||  | | | |     ||| |    |||||||| |||  || |                                                          
GTTCATAACGATGATGAGGTGAGGGCGCTGTTCAAGCAAGTTCAAGGAGAAGTCCCTGGCTCACCTATATTTATTATGAAAGTGGCATCTCAGgtgagaactgattcaaagattgtttcccttgttttcatgtcggctt-tgagcctgactctacctt---tgttctttgtatcatgagcgcttcggtgtaatatatatttgttcctgaaagcattcattctgttctttctttgtag

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: AC197672.3_FGT002 (Zea mays), 5'ss of exon 6
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctacttaactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag--------------------
||||||||||||||||||||||| || || || |||||||| |||||||| ||||| ||||| || |||||||| |||| | |||| || |||||  | | |  ||  || | | | | ||  |   |||||   ||    ||         |    |  || || ||| || || |                     
GTTCATAATGATGATGAGGTTAGAGCGCTGTTTAAGCAAGTACAAGGTGAAGTCCCTGGCTCCCCAATATTTATCATGAGGCTTGCATCCCAGgt--tagttttttttctttctttctggaatt---tataatccatccctttttgttcttttaaagttatccttgtattttctggaacatctgatacgctattgaaa

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM5G858094_T01 (Zea mays), 5'ss of exon 6
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaa-----------tggctacttaactatatcttttg-atctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag---
||||||||||||||||||||||| || || || |||||||| |||||||| ||||| ||||| || |||||| | |||| | |||| || ||||| |           |   | || || | ||| ||    | ||    |    |  ||| | | ||| |   ||| |  ||| |   ||    | | |   
GTTCATAATGATGATGAGGTTAGAGCGCTGTTTAAGCAAGTACAAGGTGAAGTCCCTGGCTCCCCAATATTTGTCATGAGGCTTGCATCCCAGgttagtttttttttttcctttctgaaatttatattccataccttttcacctttagttacccttgtattttctggaagcttcatctgatgcattattgaca

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G11120.1 (Glycine max), 5'ss of exon 4
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctacttaactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag--------
|||||||||||||||||||| |||||  | |||||||||||||||||||| || ||||| || || |||||||||||||||||||| || |||||  | | || |  |||  |||| | ||||| |||  |  |||||     ||| ||  || | ||  |  |||| |||| |||          
GTTCATAATGATGATGAGGTAAGGGCATTGTTCAAGCAAGTTCAAGGTGAAGTTCCGGGTTCACCCATATTTATAATGAAGGTTGCATCCCAGgt--tagataatccactg-atctat-gatctgaatgaacatgattcttggagtcatg-gtcgtattctgattatctattttgtttctaagtag

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G11550.1 (Glycine max), 5'ss of exon 4
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctacttaactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag--------
|||||||||||||||||||| |||||  | |||||||||||||||||||| || || || || || |||||||||||||||||||| || |||||  | | || |  |||  |||||| ||||| |||  |  |||||     ||| ||  || | ||  |  |||| | || |||          
GTTCATAATGATGATGAGGTAAGGGCATTGTTCAAGCAAGTTCAAGGTGAAGTTCCAGGTTCTCCCATATTTATAATGAAGGTTGCATCCCAGgt--tagataatccactg-atcttt-gatctgaatgaacttgattcttggagtcatg-gtcgtattctgattatctcttttgtttctaagtag

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g04980.t01 (Vitis vinifera), 5'ss of exon 5
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggctacttaactatatcttttgatctcaatat--aactgattaacttagtaatacgtgggatgttctttatatattgtgtag----------------------
||||||||||||||||| || | |||| | |||||||||||||||||||| || || ||||| || ||||| |  |||||||||||||| ||||| ||   ||  ||    |    | |||| | |||    | |   |||  ||   | |   |||  | | |||  |||  ||   |                       
GTTCATAATGATGATGAAGTCAAGGCTTTGTTCAAGCAAGTTCAAGGTGAAGTTCCTGGCTCCCCCATATTCACGATGAAGGTTGCTTCCCAGgtgata-ttatctac---tgcgctctgatttgaatgctgagccttttagatttccagttgctggagtttacttcttattctgacaattcgtttggtttcttcaaactag

upper sequence: AT1G36180.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ11248 (Selaginella moellendorffii), 5'ss of exon 4
GTTCATAATGATGATGAGGTTAGGGCTCTATTCAAGCAAGTTCAAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgta-atggctacttaactatatcttttgatctcaatataactgattaacttagtaatacgtgggatgttctttatatattgtgtag
||||| || || || ||||| | |||| | || |||||||| ||||| || || |||||||||||||| ||||| ||||| ||||| || ||||||  |    |   ||  | | | |   |    || |   ||  ||   ||  |  |   | |                       
GTTCACAACGACGAAGAGGTCAAGGCTTTGTTTAAGCAAGTGCAAGGCGAAGTACCGGGCTCGCCGATCTTTATCATGAAAGTTGCCTCTCAGgtacgtaaagaacgaagaacaccgtgaaaaaaaaaaaactctctttttgtttcttctggttag-----------------------

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|116441767|gb|EG484359.1|EG484359
EST:     AAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAG                         AGTCGACATTTAGAGGCCCAGTTGCTTTGTGACCAATATGGAAACGTAGCA
genomic: AAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggcta ... tattgtgtagAGTCGACATTTAGAGGCCCAGTTGCTTTGTGACCAATATGGAAACGTAGCA
EST: gi|116441747|gb|EG484339.1|EG484339
EST:     AAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAG                         AGTCGACATTTAGAGGCCCAGTTGCTTTGTGACCAATATGGAAACGTAGCA
genomic: AAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggcta ... tattgtgtagAGTCGACATTTAGAGGCCCAGTTGCTTTGTGACCAATATGGAAACGTAGCA
EST: gi|116441766|gb|EG484358.1|EG484358
EST:     AAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAG                         AGTCGACATTTAGAGGCCCAGTTGCTTTGTGACCAATATGGAAACGTAGCA
genomic: AAGGTGAGGTCCCGGGCTCGCCGATATTTATAATGAAGGTTGCTTCACAGgtaatggcta ... tattgtgtagAGTCGACATTTAGAGGCCCAGTTGCTTTGTGACCAATATGGAAACGTAGCA