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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttacacgaaccttttctcaactacttagaatgctgagattgttttatacgataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag

Basic information

species Arabidopsis thaliana
transcript AT2G18110.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g29260.1 (Oryza sativa), 5'ss of exon 7
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttacacg--aaccttttctcaactacttagaatgctgagattgttttatacgataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag
|| ||||| ||| | ||||   | || || ||  |  |       |||||    ||||| | | | |||||||||||||||||||| |||||||| || |||||||| |  |  ||  ||    |   || || | ||    | ||   |  |    ||  |||| |   | | ||  ||    |   | | | |  | ||||     
GATCTTGTTTCTGTGGACAGTCTCATTGAGGATTATTTTTACACGGAACCAGCTAATGAGTTTATTCAGAGTTGTGACATTGTTGCTTTCAACAAAATCTgtaagttccttggcaagtttggtgcttttagtttggatttccaaataactgaaactaatggtttgat---tgaata--tgcaaaactctaattagtgtaataaaa---

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os07g42300.2 (Oryza sativa), 5'ss of exon 7
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttacacgaaccttttctcaactacttagaatgct-gagattgttttatacgataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag
|| ||||| ||  | || |   |||| || ||  |  ||      |||||    ||||| ||  ||||||| || ||||||||||| ||||||||||| |||||||||  | |    | ||  | |   |     |  | |  |  ||| |    | || | |  ||       | |  | ||||    |  ||  | ||  |    
GATCTTGTGTCGGTTGATAGTCTGATTGAGGACTACTTCTACACCGAACCAGCGAATGAGTACATCCAGAGCTGCGACATTGTTGCGTTCAACAAGATCTgtaagttattccataagtatcagagcccgtcgttttatttgctagcgttgttcttgttattatactga------agcaatcggatgaccagctgtcttattttaag-

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G153569_T02 (Zea mays), 5'ss of exon 7
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttacacga-accttttctcaactact----tagaatg-ctgagattgt----tttatacgataatttggtgtgtaa--ctaactgttgg--atattgaattgaatcataatgcag----------------------------------------------------
|||||||| ||| | |||||  | ||||| || || |||   | ||| ||  | |  ||||| |||||||| || |||||||| |||||||||||||| ||||||| |  |   || |  ||   ||  ||    ||| ||  ||  ||   |      ||  |  ||  ||||| ||| |  | | ||  |    ||| ||  |||     |  |  |                                                     
GACCTTGTCTCTGTTGACACTCTCATCGAGGACCATCTCTGCGCTGAGCCAGTGAGCGAATACGTCCAGAGCTGCGACATTGTCGCCTTCAACAAGATCTgtaagtcattcatcacttaatccttacagctgcagtagcataactaggaccatgcaacctactcattatattggtctgtcatgcaacctactcattatactgggttgtccagttgtaaacttttctgctctcaatgtgttgataacttttggtcaatcctgttgtgttgcag

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G37120.2 (Glycine max), 5'ss of exon 7
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttacacga---accttttctcaactacttagaatgctgagattg---ttttatacgataatttggtgtgtaac-taactgttggatattgaattgaatcataatgcag--------------------
||||| || ||| | || ||  | || || || || ||||| ||||| || |||||||||||||||||||||||||||||||| |||||||| || |||||||||||         ||||||||| | |       | | || || |||   || |||  | | |   | |   || | |   | |  | | ||| ||    | ||||  |                      
GACCTAGTTTCTGTTGATACTCTTATTGAGGAACATCTCACAGTTGAGCCCATCAATGAATATGTCCAGAGTTGTGACATTGTGGCCTTCAATAAAATATgtaagttttttagatgaccttttcttatccctagtaattcctaaggttggtgttgtatttgttgacaagattcatatccttgttatatggttttgcatcttgttataacacgctatttcatatcttattacag

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G17930.1 (Glycine max), 5'ss of exon 7
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagt---tacacgaaccttttctcaactacttagaatgct--gagattgttttatac--gataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag------------------
    | || ||| | || ||  | || || || || ||||| ||||| || |||||||||||||||||||||||||||||||| |||||||| || ||||||||||   |  |     |||||||  |    |   ||| |    || | ||||| ||   | |     | |   ||  |   | |  | | ||| ||    | |||| ||                    
----TAGTTTCTGTTGATACTCTTATTGAGGAACATCTCACAGTTGAGCCCATCAATGAATATGTCCAGAGTTGTGACATTGTGGCCTTCAATAAAATATGTAAgtatttttagatgacttttctttatccttagtaattcctaaagttggttttgtatttgttggcaagattcatatttttttatatggttttgcatcttgttataacgctacttcataacttgttacag

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G17930.4 (Glycine max), 5'ss of exon 6
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagt---tacacgaaccttttctcaactacttagaatgct--gagattgttttatac--gataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag------------------
||||| || ||| | || ||  | || || || || ||||| ||||| || |||||||||||||||||||||||||||||||| |||||||| || ||||||||||   |  |     |||||||  |    |   ||| |    || | ||||| ||   | |     | |   ||  |   | |  | | ||| ||    | |||| ||                    
GACCTAGTTTCTGTTGATACTCTTATTGAGGAACATCTCACAGTTGAGCCCATCAATGAATATGTCCAGAGTTGTGACATTGTGGCCTTCAATAAAATATgtaagtatttttagatgacttttctttatccttagtaattcctaaagttggttttgtatttgttggcaagattcatatttttttatatggttttgcatcttgttataacgctacttcataacttgttacag

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv17s0000g01540.t01 (Vitis vinifera), 5'ss of exon 7
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttacacgaaccttttctcaactacttagaatgctgagattgttttatacgataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag
||| | || ||| | |||  | | || || || ||  | ||||||||||| |  ||||| ||||||||||| ||||||||||| ||||||||||||||||||||||| ||    | | || |    || |  | || |    |   |  | | |  |  | || | | |   |     |||                         
GACTTGGTTTCTGTGGACGACCTTATTGAGGAACAGTTGACTGTTGAACCCACGAATGAGTATGTCCAGAGCTGTGACATTGTAGCCTTCAACAAGATATgtaagtt-cattttcatgttgtgtggta-tagggatcc---aaccatcctttgctgtgctctgttctatgtttc----ttgag-----------------------

upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S145_172V6.1 (Physcomitrella patens), 5'ss of exon 5
GACCTTGTATCTATCGACACCATGATCGAAGAGCAACTCACTGTTGAACCGATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagt--taca----cgaaccttttctcaactacttagaatgc-tgagattgttttatacgataatttggtgtgtaactaactgttggatattgaattgaatcataatgcag---------
||||| ||   |||||||| | |||| || || || || ||    || || | ||| || ||  | |||  |||||||||||||||||||||||||||||||||||  | ||    ||    |||| ||   |   |  |   | | | | |     ||       |||| ||    | ||| |  ||| | ||  | | ||   || |             
GACCTCGTCAGTATCGACAACCTGATTGAGGACCATCTGACCTCCGAGCCCAACAACGAGTACATTCAGTCTTGTGACATTGTTGCCTTCAACAAGATATgtaagtacttcaatttcgggttttttttctcttttctctatcacgtaaaaataaacaatttaggcctttgttggcgcattaaat-ctggctgtttcacttaactgtattttcaattttgcag

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|124751836|gb|EH841966.1|EH841966
EST:     TCAATGAATATGTCCAGAGCTGTGACATTGTTGCCTTCAACAAGATAT                         GAGGATGGAGAA
genomic: TCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttaca ... cataatgcagGAGGATGGAGAA
EST: gi|86079763|gb|DR375520.1|DR375520
EST:     GATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATAT                         GAGGATGGAGAATAGCTTGAAGGAAGAACTGTTTATGTTGTTGTTTTCTTC
genomic: GATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttaca ... cataatgcagGAGGATGGAGAATAGCTTGAAGGAAGAACTGTTTATGTTGTTGTTTTCTTC
EST: gi|116457587|gb|EG500179.1|EG500179
EST:     GATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATAT                         GAGGATGGAGAATAGCTTGAAGGAAGAACTGTTTATGTTGTTGTTTT
genomic: GATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttaca ... cataatgcagGAGGATGGAGAATAGCTTGAAGGAAGAACTGTTTATGTTGTTGTTTT
EST: gi|124737193|gb|EH828595.1|EH828595
EST:     GATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATAT                         GAGGATGGAGAATAGCTTGAAGGAAGAACTGTTTATGTTG
genomic: GATCAATGAATATGTCCAGAGTTGTGACATTGTTGCCTTCAACAAGATATgtaagttaca ... cataatgcagGAGGATGGAGAATAGCTTGAAGGAAGAACTGTTTATGTTG