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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G59290.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 5'ss of exon 8
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaag-tcattag--ctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
| ||||| ||||| || || |||||||| ||||| ||| | |||||||| ||||||||||||||||| || |||||||||||||| ||  | |||||| | ||  |     ||| ||||| |  |      || ||| |||    |   | ||      | ||| |||  |   | ||  ||
AGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACGgtaatgctcgctgaacttctttcaacattctc----tcaggttgtgtccagttggtcctggagcttattttcatacataattttacag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaag-tcattag--ctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
| ||||| ||||| || || |||||||| ||||| ||| | |||||||| ||||||||||||||||| || |||||||||||||| ||  | |||||| | ||  |     ||| ||||| |  |      || ||| |||    |   | ||      | ||| |||              
AGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTgttagtaacttcattgctcaggccgtacggtaatgctcgctgaacttctttcaacattctc----tcaggttgtgtccagttggtcctggagcttattttcata-------------

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G157772_T02 (Zea mays), 5'ss of exon 5
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaag--tcattagctctctca-acttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | |||||| |  |  ||   | |||   | ||  |    | | | |   | |  ||    |  ||      ||| ||   ||| | | |   
AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaatc---ttttcac--aatctttag---

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 8
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaag--tcattagctctctca-acttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | |||||| |  |  ||   | |||   | ||  |    | | | |   | |  ||    |  ||      ||| ||   ||| | | |   
AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgtcttttattttctcctcagctactgcagatagattggcggctaatc---ttttcac--aatctttag---

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 15
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaag--tcattagctctctca-acttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | |||||| |  |  ||   | |||   | ||  |    | | | |   | |  ||    |  ||      ||| ||   ||| | | |   
AAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgctttgttgaatgtcttttattttctcctcagctactgcagatatattggcggctaatc---ttttcac--aatctttag---

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
||||||| ||||| || || || ||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | |||||| |   || | |   |  | || |||    |      |   | ||  | |  || || |    ||  || |   | || |||
AAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgc--tttgttgaatgtattttattttctcttgagct-actgcagatata-ttggcggctaatcttttcacaatctt-tag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaag-tcattagctctctcaacttcattgaaaccaagttttgtttcat--ctctgcttagctgtgtttccattaaatgtgttgtag
||||||| ||||| || || |||||||| ||||| ||  | |||||||| || ||||| |||||||| ||||||||||||||||| ||  | |||||| | |  ||   |   | |  ||| |     |||  || ||    ||   | || |      | ||| ||| |    | ||||||
AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttgttgaattctttagtttcttc----ccagcttctgccagatagttttggtggctaatattttcatga----tcttgtag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 10
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTC-GAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag
||||||| ||||| || || || ||||| ||||| |||  | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | |||||| |   || | |   |  | || |||    |      |   | ||  | |  || || |    ||  || |   | || |||
AAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgc--tttgttgaatgtattttattttctcttgagct-actgcagatata-ttggcggctaatcttttcacaatctt-tag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 10
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaa--agtcattagctctctcaacttcattgaaacca-agttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag--------------
|||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| ||||||||||||||||||||||| ||||||  | |     | | |||    || ||  |  | | | | |||||  |  ||||  || || | ||   |||      ||| |                
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCGgtaattacttgactgttatctggttttaatgcatgctataatgttgtt--acttctgtatatctattttgatattctgatggttttgattgccagaaggatc

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G04500.1 (Glycine max), 5'ss of exon 10
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag--------------------
|||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| ||||||||||||||||||||||| ||||||   | |||   || | | ||   || ||  || | | |  |   |   | |||     ||| |   ||| || | || |                      
AAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCGgtaattacttta---ctgttatctggtttaaatgcatgctataat--gttgttacttctgcatgtcttttttatatatattctgatggttttggttgtcagaagg

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtg--tttccattaaatgtgttgtag--------------
|||| |||||||| |||||||||||||||||||| || || ||||| || ||||||||||||||||| || |||||||||||||||||| | |||||||  | ||| ||   | ||  | || |  |  | |  |    | ||   |  ||   |  |  |||  ||||  |    | |                
AAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCGgtaaatcctttaacttaat-aatgttataggcaagatggatatgctgataaatagttttttaagactttatattatctcaactctcaagaaacattgatgc

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 8
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttc--------attgaaac-----caagt--tttgtttcatctctgcttagctgtgtttccattaaatgt-gttgtag
|||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| || |||||||| ||||||||| | ||||||   | ||| || | | |  ||         || || |       || |  ||| ||    || |   || ||    |  ||  |||  | | |||| 
AAATACGCATTGCGAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATCGCTCAAGCAATTCGgtaattcctttaactttataatgttataggcaagatggatatgctgataaataattttttaagactttatatatctcaactctcaagaaacattgatgta-

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA12G06990.1 (Glycine max), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtt---tcatctctgcttagctgtgtt--tccattaa--atgtgttgtag--------
|||| ||  |||| |||||||| ||||||||||| || || ||||| || |||||||| |||||||| ||||||||||||||||||||| | ||||||    |  |  | ||      |  || | |    ||  |||    | || ||| | |  ||   ||  ||  ||||  |||  || |          
AAATACGTGTTGCAAGAATCTTTAACACATATGGGCCGCGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCAATTCGgtaattaaagcatttttcagtttgtagtttatatgctgtactgtagtgttatttctacgtgccttgtttgatctgttaatgatggtttttgattgccaca

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA11G15020.1 (Glycine max), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaaagtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccattaaatgtgttgtag-------------------
|||| ||  |||| |||||||| ||||||||||| || || ||||| || |||||||| |||||||| ||||||||||||||||||||  | ||||||  | |  |  | | |||  ||  | |     | ||| |  |  |    |  ||   ||||  |   ||  || ||||   |                   
AAATACGTGTTGCAAGAATCTTTAACACATATGGGCCACGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCGATTCGgtaa--ttaaaacatttttcagttt-gtagtttatatgttgtactgtagtgttatttctatgtgcctt-gtttgatctgttaatgatggtttttgattgctgca

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaa----------agtcattagctctc--tcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttcca---ttaaatgtgttgtag-
|||| |||||||||||||| |||||||||||||| || || ||||| || |||||||| |||||||| ||||| ||||| ||||||||||| |||||           |||| |||||| |   |||  ||  |      | | |||  ||| |||  ||||| | |   ||||||   | | ||    || |  
AAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCGgtatgtccttatgtagtccttagctgttgatcatatttgtaagctactattttcatttaatca-tgctttgtttaatttccaagatgacatccactgaact

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 9
AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCGgtaa-agtcattagctctctcaacttcattgaaaccaagttttgtttcatctctgcttagctgtgtttccat-taaatgtgttgtag
|||||||  | ||  |||| || ||||| ||||| ||||| ||||| ||||| |||||||| || || ||||| || |||||||||||| |  ||||   ||| | |        || |||| |    ||     ||  |  | |||  |  |  ||   |    |     ||||| |   
AAATCCGTGTAGCACGAATTTTTAACACCTATGGGCCTCGCATGAATATCGACGATGGGCGAGTAGTCAGCAATTTTATTGCTCAAGCATTAAGgtactggtcctcaaggtctcaaaattcaatatttccttaacttaatgaa-ctcaacacatttgacatgatgtacgggtgtgtag---

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|125009748|gb|EL082017.1|EL082017
EST:     TGCTCAAGCACTCCG                         GGGTGAGGCATTGACAGTTCAGAAACCGGGGACACAGACCCGCAGTTTCTG
genomic: TGCTCAAGCACTCCGgtaaagtcat ... tgtgttgtagGGGTGAGGCATTGACAGTTCAGAAACCGGGGACACAGACCCGCAGTTTCTG