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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGAAGTACTTGACAAACATCTCAAGGTGACTGGAGGGAAAGTTTATACTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaatacatgatatgaggttttgggatgttttgcttgatggtgtatggttcgttagggctatggttttatgttcgtttccaatgcttgtacttccag

Basic information

species Arabidopsis thaliana
transcript AT1G25350.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 5'ss of exon 9
AAAGGAAGTACTTGACAAACATCTCAAGGTGACTGGAGGGAAAGTTTATACTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaatacatgatatgaggttttgggatgttttgcttgatggt-gtatggttcgttagggctatggttttatgttcgtttccaatgcttgtacttccag
 |||||  |  | || ||||| || ||||  || || || |||||    || || ||||| || ||||| ||||| |||||||||||||| |||||||||||   || ||  || | |      |||   | |    | |     |   ||  ||  | | |  |||| || |||| |    ||  ||||            
TAAGGAGATTTTAGAGAAACACCTTAAGGCAACCGGTGGAAAAGTGATGACCCGTTTCCCACCAGAACCTAATGGATATCTTCATATTGGTCATGCCAAGgtttcaa-tatttgctttcgttaattgtattttcgcacataccacttaaatcatttttgaagattatgcttatatgctt-catcttatgcag----------

upper sequence: AT1G25350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G032049_T01 (Zea mays), 5'ss of exon 9
AAAGGAAGTACTTGACAAACATCTCAAGGTGACTGGAGGGAAAGTTTATACTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaatacatgatatgaggttttgggatgttttgcttgatggtgtatggttcgttagggctatggttttatgttcgtttccaatgcttgtacttccag
||||||| |  | || |||||||| || |  |||||||| |||||    || || || || || ||||| ||||| |||||||||||||| |||||||||||      |  || || |    || | | |||  || | |     || |       |||    |       ||| |  | || || |||||   |   |||
AAAGGAAATTTTAGAAAAACATCTTAAAGCAACTGGAGGAAAAGTGATGACCCGTTTTCCACCAGAACCTAATGGATATCTTCATATTGGTCATGCCAAGgtt-----ttgataattttc--ttcttgaatgcatttcct-----tgcacaaaattttaaaattga-----tatatatgcttaca-tgcttcatcacacag

upper sequence: AT1G25350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G048012_T01 (Zea mays), 5'ss of exon 8
AAAGGAAGTACTTGACAAACATCTCAAGGTGACTGGAGGGAAAGTTTATACTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaatacatgatatgaggttttgggatgttttgcttgatggtgtatggttcgttagggctatggttttatgttcgtttccaatgcttgtacttccag
||||||| |  | || |||||||||||||  |||||||| |||||    || || || || || ||||| ||||| |||||||||||||| |||||||||||    |  |  |  |       |    |   ||   |    |  | | |  |||| |  |  |||| ||  | | |   |  ||  |             
AAAGGAAATTTTGGAAAAACATCTCAAGGCAACTGGAGGAAAAGTGATGACCCGTTTTCCACCAGAACCTAATGGATATCTTCATATTGGTCATGCCAAGgttttgagaatctccttcataaatgcatgtctttggacacatt--tttttaattcgatgtgtatatgcttacaagcttcatcacatag-------------

upper sequence: AT1G25350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 5'ss of exon 9
AAAGGAAGTACTTGACAAACATCTCAAGGTGACTGGAGGGAAAGTTTATACTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaag-aaatacatgatatgaggt--tttgggatgttttgcttgatggtgtatggttcgttagggctatggttttatgttcgtttccaatgcttgtacttccag
||||||| | ||||| | |||| | || | ||| || |  | ||||| ||| || ||||| |||||||||||||| ||||| |||||||| |||||||||||||  || ||  |  ||| ||    | || | | | ||  ||  || || || ||   ||||  | ||  |||||     ||                     
AAAGGAAATGCTTGAAAGACATTTAAAAGCGACAGGTGAAAGAGTTTTTACACGCTTCCCACCTGAACCAAATGGGTATCTGCATATTGGTCATGCCAAGgtaatcaagtatcttctataagaaagtctgagctctgttattttctg-tg-atagtggtttagttccatctttttacaactgtacag-----------------

upper sequence: AT1G25350.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 5'ss of exon 9
AAAGGAAGTACTTGACAAACATCTCAAGGTGACTGGAGGGAAAGTTTATACTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaatacat---gatatgaggttttgggatgttttgcttgatggtgta-tggttcgttag--ggctatggttttatgttcgtttccaatgc--ttgtacttccag--
|| |||| | ||||| |||||| | || |  || ||||||| ||||| ||| || || || || || |||||||| ||||| |||||||| |||||||||||||  | || ||     |||||   |||  |||   ||   || |   ||| |  |   |||   |   |||     |   |  | |  ||| |  | | | ||  |   
AAGGGAAATGCTTGAAAAACATTTAAAAGCCACAGGAGGGAGAGTTTTTACCCGCTTTCCACCAGAGCCAAATGGGTATCTGCATATTGGTCATGCCAAGgtaatcattatatttaattatgaaaattttagattcattatctgttttagtagtcataaattatatgaagatgaaccaaaaataatctttaatccaatggcaattttacag

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|124717223|gb|EH808625.1|EH808625
EST:     CTCGGTT-CCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAG                         GCTATGTTTGTTGATTTTGGTCTTGCAAAGGAGCGAGGGGGTTG
genomic: CTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaata ... gtacttccagGCTATGTTTGTTGATTTTGGTCTTGCAAAGGAGCGAGGGGGTTG
EST: gi|124753252|gb|EH843382.1|EH843382
EST:     CTCGGTT-CCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAG                         GCTATGTTTGTTGATTTTGGTCTTGCAAAGGAGCGAGGGGGTTG
genomic: CTCGGTTCCCCCCTGAACCAAATGGTTATCTTCATATTGGACATGCCAAGgtaagaaata ... gtacttccagGCTATGTTTGTTGATTTTGGTCTTGCAAAGGAGCGAGGGGGTTG