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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtcttttctctttttgcatgtgttcttgtttcagtttctttcttcacacatcaactgatcataattacgttttggtttag

Basic information

species Arabidopsis thaliana
transcript AT4G18710.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os05g11730.1 (Oryza sativa), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtcttttctctttttgcatgtgttct-tgtttcagtttctttcttcacacatcaactgatcataattacgt--tttggtttag-----------------------------------------------------------------------------------------------
||||||||||||||||| || || ||||| ||||| ||||| ||  | || ||||| || ||||||||||||||||| || || || ||||||||||| ||  |    |||  |      || ||  | | |  |    |||||  |             |  || |  | ||   | || | |                                                                                                
GTTCTTGGTACACCAACCCGTGAGGAAATACGTTGCATGAACCCGAACTATACAGAGTTTAGGTTTCCACAGATAAAAGCTCACCCTTGGCACAAGgtaagcatacaatcttatccatgttgagtcatatatcacgtcatcttttatagtttcctggacaactatgaaaatgtagctgggctcatttccaataatagattctggacaccagatagctttacaatgcaatgtataaataaggaggtgcatacaggtactgatttttctaacttctgcgtag

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G045330_T02 (Zea mays), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgt--tagtgtctt---ttctctttttgcatgtgttcttgtttcagtttctttcttcacacatcaactgatcataattacgttttggtttag-------------------------------------------------------------------------------------------------------------
||||||||||| ||||| || || || || || || ||||||||  | || || || ||||||||||| ||||||||||| ||||| |||||||||||  |  | | ||   |  | ||| ||      |   |  | || |||   |      ||   |  ||   |    ||       ||  |                                                                                                              
GTTCTTGGTACTCCAACCCGTGAGGAGATACGGTGCATGAATCCCAACTATACTGAGTTCAGGTTTCCTCAGATAAAGGCTCATCCATGGCACAAGgtattcatatgttaaatcatgtttctgttcacatctattatccattttacctgcaggtactgtagttgtatacttgtagtccacagtccaaaatgttttcaaagggcgctgaagaacttgtttgcagatcatatcgaaactttgagctcagaatgcatcaattactaactgatgcctctactttccgttttatcctccag

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G472625_T01 (Zea mays), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtcttttctctttttgcatgtgttcttgtttcagtttctttcttcacacatcaactgatcataattacgttttggtttag-----------------
||||||||||| ||||| || || || || || || ||||||||  | || || || ||||||||||| ||||||||||| ||||| |||||||||||     | | ||    |  ||  | ||| |   | |  | |||  | ||||| || || || |   || |||  |  | ||                     
GTTCTTGGTACTCCAACCCGTGAGGAGATACGATGCATGAATCCCAACTATACTGAGTTCAGGTTTCCTCAGATAAAGGCTCATCCGTGGCACAAGgtattcttatgttaaaatcatgtttctgtccacatctatgattccat-ttcac-cagcagct-actgtagttatatacttgtagcccacggtccaaaatgtta

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G09090.1 (Glycine max), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgt-tagtgtcttttctctttttgcatgtgttcttgtttcagtttctt-------tcttcacacatcaac-----tgatcataattacgttttggtttag-----
|| ||||| ||||| |||||||| ||| | || |||||||||||  ||||||  || || ||||||||||||||||| ||||| || ||||||||||| ||   | || |||  |||   |    ||  | |||||| |  ||         ||  ||  | |||     ||  |||  | ||  || |   | |     
GTGCTTGGCACACCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAGgtctaaaattttatctactttcagaca-attggtttttcagatgattaaaatgtaattagcatgtaaacattcctggacattctaacacttcgaaattgtgtag

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G30060.2 (Glycine max), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgt-tagtgtcttttctctttttgcatgtgttcttgtttcagtttctttc-ttcacacatcaactgatcataattacgttttggtttag-------------------------
|| ||||| ||||| |||||||| ||| | || |||||||||||  ||||||  || || ||||||||||||||||| ||||| || ||||||||||| ||   | || |||  |||   |    |  || ||    |   |    |  |   | ||    || || |  || ||   |   |                          
GTGCTTGGCACACCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAGgtatataattttatctactttcagacaattggtttttctgatgattaaaatgtaattagcatgaaatgatgaaaacattcctggacattctaacacatcaaaattctgtgtag

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA06G06850.1 (Glycine max), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtcttttctctttttgcatgtgttcttgtttcagtttctttcttcacacatcaac-tgatcataattacgttttggtttag--------------------
|| ||||| ||||| || ||||| ||| | || |||||||||||  ||||||  || || ||||||||||||||||| ||||| || |||||||||||   |   |||      ||   |   |||  | |||||| |  |          || ||| |||  |  ||| |       | ||                     
GTGCTTGGCACACCCACCCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCACAGATAAAAGCACACCCATGGCACAAGgtctataattttatctccttcagaca-gttggtttttcagatgataaaaaatgtgattaacatgaaaaatattcctgggcattctaacacatcaaaattttatgtag

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA04G06760.1 (Glycine max), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgt-tagtgtcttttctctttttgcatgtgttcttgtttcagtttctttcttcacacatcaactgatcataatt----acgttttggtttag---------------
|| ||||| || || |||||||| ||| | || |||||||||||  ||||||  || || |||||||| |||||||| ||||| || ||||||||||| ||   | || |||| |||   |   ||   | |||||| |  |           | |  |||  ||| |      | || |     |                
GTGCTTGGCACGCCCACTCGAGAGGAAGTACGCTGTATGAATCCCAATTACAATGACTTTAGGTTTCCTCAGATAAAAGCACACCCATGGCACAAGgtctataattttatctcctttcagaca-gtgggtttttcagatgatcaaaatgtgattaacatgaaaatattcctgggcattctaacacatcaaaattgtgtgtag

upper sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 5'ss of exon 9
GTTCTTGGTACACCAACTCGAGAAGAAATCCGTTGTATGAATCCACATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtcttttctctttttgcatg--tgttcttgtttcagtttctttcttcacacatcaa--ctgatcataattacgttttggtttag----------
||||||||||||||||| || |||||||| || |||||||||||   ||| || ||||| ||||||||||||||||| ||||| || |||||||||||| |  | || | | |||   | |   |||  || | ||||||  |  |  || | || |   | | | ||||  ||||      |||           
GTTCTTGGTACACCAACGCGGGAAGAAATTCGCTGTATGAATCCGAGTTATACTGATTTTAGGTTTCCACAGATAAAAGCACACCCTTGGCACAAGgtttgcattttatttatttcccctttattgtggttttgtcagttaataacaacatagatgagaccagttaataacaacgtagatcattatattatctata

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|124797430|gb|EH887109.1|EH887109
EST:     ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCA
genomic: ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCA
EST: gi|164204318|gb|ES012569.1|ES012569
EST:     GGTTTCCACAGATAAAGGCACATCCGTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
genomic: GGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
EST: gi|116451981|gb|EG494573.1|EG494573
EST:     ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
genomic: ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
EST: gi|124752161|gb|EH842291.1|EH842291
EST:     ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGG
genomic: ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGG
EST: gi|86056749|gb|DR352506.1|DR352506
EST:     ACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
genomic: ACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
EST: gi|116452048|gb|EG494640.1|EG494640
EST:     ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
genomic: ATTACACAGATTTCAGGTTTCCACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTGCATCAAGGCTG
EST: gi|125227216|gb|EL241301.1|EL241301
EST:     TACACAGATTTCAGGTTTTCCTACAGATAAAGGCACATCCCTGGCACAAG                         ATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTG
genomic: TACACAGATTTCAGG-TTTCC-ACAGATAAAGGCACATCCCTGGCACAAGgttagtgtct ... tttggtttagATCTTCCACAAAAGGATGCCCCCAGAAGCGATTGATTTTG