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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag

Basic information

species Arabidopsis thaliana
transcript AT5G27720.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgtta--tcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
||||||||||||||||| || ||||| ||||| ||||| |||||||| || || || |||||||||||||| || || || || || || || |||||||| |  |||    |   |           |   || | |||  |  |       ||| |    | |  | | |   | |     |   |   |  |    | |    
CTCGTGGAGCTTAAGAACGGCGAGACGTACAACGGGCACTTGGTGAACTGCGACACGTGGATGAACATCCACCTCCGGGAGGTTATTTGCACCTCAAAGgtgaaatctcgcatccccgacccacttcgcttgtagattttagtggggacaaaagattag---tggcattgtttggatttggggaaaatagggagtagccatt----

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G038606_T02 (Zea mays), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgc-ttgattactctag
||||||||||| |||||||| ||||||||||| |||||| |||| ||||| || || |||||||||||||||||  | || || || || || |||||||| |    |  | |       ||||| || ||       |  |  | || |  |  ||  || ||  ||   ||  ||  || ||| | ||  |   |||| | | 
CTCGTGGAGCTGAAGAATGGTGAGACATACAACGGGCATCTGGTCAATTGCGACACGTGGATGAACATCCATCTTAGGGAGGTTATTTGCACCTCAAAGgtgaa---aaatctggtgcccttgattcacattgtgaaaggctctagttagcaa--aagattagttaagtgcactgtctgatttttgggtgaatctcttacccga-

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G095114_T02 (Zea mays), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgtt----atcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
||||||||||| |||||||| ||||| ||||| |||||| |||| ||||| || || |||||||||||||| ||  | || || || || || ||||||||     ||||  ||   |   ||    ||    |||   | |  ||||                                                            
CTCGTGGAGCTGAAGAATGGTGAGACGTACAACGGGCATCTGGTCAATTgcgacacgtggatgaacatccaccttagggaggttatttgcacctcaaaggtgaaaaatctggtgcccttg-attcccattgtgataggttcttgttagca----------------------------------------------------------

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G095114_T01 (Zea mays), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgtt----atcttatg-------------ttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttg---tgtagctgacactcatatattttgctgcttgattactctag---------------------------------------
||||||||||| |||||||| ||||| ||||| |||||| |||| ||||| || || |||||||||||||| ||  | || || || || || ||||||||     ||||  ||             || | ||| |||  |   |  | |   |   |  | | | |  |   ||||||   || | |||| | | | ||  |  | | |  | |   |||                                         
CTCGTGGAGCTGAAGAATGGTGAGACGTACAACGGGCATCTGGTCAATTGCGACACGTGGATGAACATCCACCTTAGGGAGGTTATTTGCACCTCAAAGgtgaaaaatctggtgcccttgattcccattgtgataggttcttgttagcaaaagattagttaagtgcattgtttgattttgaggtgaatctgatagtaacattatggggtaccagttatttctgtctttcctgtagtaaaggtttataatggctggaattgcag

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G37170.2 (Glycine max), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttc-atatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
 | ||||| || || ||||| |||||||| || ||||||||||| ||||| || || |||||||||||||||||||| |||||||| |||||||| || || || ||   ||| | ||   ||| |     | |  ||||||        ||  || ||||| ||   | ||  |      |  |||     ||| | | | |||
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGACACATGGATGAACATCCATCTGCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgct-----tgttttttgtt--------gtcttgtaatttggttatgatggaaaaggcttgatttaaattttggtaa-tgtag

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G39780.1 (Glycine max), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttc-atatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
 | ||||| || || ||||| |||||||| || ||||||||||| ||||| ||||| ||||||||||||||||| || |||||||| |||||||| || || || ||   ||| | ||   ||| |     | |  ||||||      | || ||   ||| ||       |       |  | || ||    |           
TTGGTGGAACTGAAAAATGGGGAGACATATAACGGGCATTTGGTTAATTGCGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACATCTAAAgtaatgttgcttttacgatcccttgct-----tgttttttgtt---gtcttgtaatttgattgtgatggaaaggtttgatttcaattggcaatgtag---------

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G17430.2 (Glycine max), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttcatatgttgatacaaatatacttt---gtttagacttcgtg-atgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
|| ||||| || || ||||| ||||| || || ||||| ||||| ||||||||||| ||||||||||||||||| || |||||||| ||||| || || || |   | | ||||||    |        ||  | | |    | | | ||||     ||  | | | ||| |||      | || |  |||    |||   | ||   
CTGGTGGAACTGAAAAATGGGGAGACTTATAACGGGCACTTGGTTAATTGTGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACCTCTAAAgtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcatgtgtgaatgtttgttgctacttaacttacaacttgaaa-ttggcaattcag-

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G02380.1 (Glycine max), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttcatatgttgatacaaatatacttt---gtttagacttcgtg-atgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
|| ||||| || || ||||| ||||| || || ||||| ||||| ||||||||||| ||||||||||| ||||| || |||||||| ||||| || || || |   | | ||||||    |        ||  ||| |    | | | ||||    |||  | | | |||  |       | || | ||||    |||   | ||   
CTAGTGGAACTGAAAAATGGGGAGACTTATAACGGGCACTTGGTTAATTGTGATACATGGATGAACATTCATCTCCGAGAAGTCATTTGTACCTCTAAAgtaacgatcttttttcactgttctccctgcattcactctcagatattgtcttctcatatgtgaatgtctgttacaacttaacttacaatttgaaa-ttggcaattcag-

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0060g02240.t01 (Vitis vinifera), 5'ss of exon 3
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag--------------
 | |||||||| || ||||| || || |||||||| ||||| |||||||||||||| ||||||||||||||||||||||||||||| || || ||||| ||    |  | |||   |   |  ||       || |||  ||  | ||  |  |  |||    |  |    |   |||| |  | || | | || | ||  | |              
TTGGTGGAGCTGAAAAATGGGGAAACTTACAATGGTCATTTAGTGAATTGTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgta---tggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaa----atgatcatcttctgtgattcatggtcacaatgggaattaaaatgtag

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0005g00230.t01 (Vitis vinifera), 5'ss of exon 5
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttatgttttcatatgttgatacaaat-atactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
 | ||||||||||| |||||||| || ||||||||||||||||| || |||||||||||||||||||| ||||| || ||||| || ||||| ||||| || |||  |   ||| ||    || |     |  |  |||  ||    ||     ||| | ||  |||        |  ||  || || |  |    ||| | |||
TTGGTGGAGCTTAAAAATGGAGAAACTTACAATGGGCATTTGGTTAACTGTGATACTTGGATGAACATTCATCTTCGGGAAGTTATCTGTACCTCAAAAgtaatca-actctttaattgactgttcttgtttgttgtttacttcttatttaccttgacagttcttgtttgctcttcaaattcatgtttcatccgatttaatgtag

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S36_327V6.2 (Physcomitrella patens), 5'ss of exon 2
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatc-------------ttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgac--actcatatattttgctgcttgattactctag---------------------------------------
|| || ||||| || ||||||||||| || || || ||||| || || |||||||| ||||||||||| || || |||||||| || || || |||||||| ||              |||| | ||    | || | |   || | | | ||     || | || |  |  ||| | | || ||   | | || |   ||  |  | ||||  | | |                                       
CTTGTCGAGCTCAAAAATGGAGAGACTTATAACGGCCATTTAGTAAACTGTGATACATGGATGAACATTCACCTACGTGAAGTTATTTGCACCTCAAAGgtgattatttttgctaccattatctattagggttttcaaagtgatctgcctcgtcccagctgc-tggttcatatttatattgcagatgaattaatttgagttattcttcgattgttattgattccttttggttttataatggatatgtgggcattgtag

upper sequence: AT5G27720.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ10085 (Selaginella moellendorffii), 5'ss of exon 2
CTCGTGGAGCTTAAGAATGGAGAGACATACAATGGGCATTTGGTGAATTGTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgtta-tcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctag
        ||| |||||||||||||| |||||||||||||||||||  || ||||  ||||||||||||||||| || ||||| || || || || ||||  | |  | | || || |   ||  |      || |||  | |   || |                                                       
--------GCTCAAGAATGGAGAGACTTACAATGGGCATTTGGTGAGCTGCGATAGCTGGATGAACATCCATCTACGAGAAGTTATTTGCACTTCCAAGGCGAGTGATgttttctccttcctttcttttctcatccttcttct---ctccag-----------------------------------------------------

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|86050911|gb|DR346666.1|DR346666
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050917|gb|DR346672.1|DR346672
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|47831834|gb|CK121518.1|CK121518
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|47832106|gb|CK121790.1|CK121790
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|116449433|gb|EG492025.1|EG492025
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050907|gb|DR346662.1|DR346662
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|124916063|gb|EH989937.1|EH989937
EST:     ATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: ATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050915|gb|DR346670.1|DR346670
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|164121935|gb|ES162010.1|ES162010
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCG
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCG
EST: gi|86080718|gb|DR376475.1|DR376475
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050918|gb|DR346673.1|DR346673
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|116480858|gb|EG523450.1|EG523450
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050914|gb|DR346669.1|DR346669
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|116480849|gb|EG523441.1|EG523441
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA
EST: gi|86050916|gb|DR346671.1|DR346671
EST:     GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAG                         GACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTA-CACA
genomic: GTGATACTTGGATGAACATCCATCTGCGTGAAGTCATATGTACATCAAAGgttatcttat ... attactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACA