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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag

Basic information

species Arabidopsis thaliana
transcript AT4G10610.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 5'ss of exon 4
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag
||||| ||||||||||| ||||| ||||| || || || ||| | ||||||||||| |||||||||||||| ||||     |||       ||  |  |    ||    | |   |  ||     |||||| ||    ||   |  ||          
GTTGTGGACTGTCGTATGTGTGGGGATCCGAATTCTGTTCTTCGTTTTGCTTTCATAGAGTTCACTGATGAGGgta-----agtggtcgagtgataattaagcatatacttagatcaatagtcaattggttaataaactgctctgctgcag-------

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G175541_T02 (Zea mays), 5'ss of exon 4
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| |    |    |               
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGGgtaatata----tccatatacaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcctag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G044246_T02 (Zea mays), 5'ss of exon 4
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| |    |    |               
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGGgtaatata----tccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G014573_T01 (Zea mays), 5'ss of exon 2
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| ||   |    |               
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGATGgtaatata----tccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G069102_T03 (Zea mays), 5'ss of exon 4
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag-------------------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||   | |   ||   |  |  |  || || ||  | | | ||  |||| ||   |    |                          
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGGgtaatata----tccatatcccaccatgtttcagtttgcttactctatgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagagggtgcaaga

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G349794_T01 (Zea mays), 5'ss of exon 5
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| ||   |    |               
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGATGgtaatata----tccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgagtgaaaaacatcgatgtccaag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G069102_T01 (Zea mays), 5'ss of exon 4
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||   | |   ||   |  |  |  || || ||  | | | ||  |||| ||   |    |               
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGGgtaatata----tccatatcccaccatgtttcagtttgcttactctatgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G376619_T01 (Zea mays), 5'ss of exon 5
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag-------------------------------------------------------------------------------------------------
||||| || ||||| || ||||| || || || ||||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| ||   |    |                                                                                                        
GTTGTGGAGTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCACTGATGAGGgtaatata----tccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagagggtgcaagggctgctctgaatctgtcaggaaccgtgcttggatattatcctatcaatgttctaccgtcaaaaactgcattgcaccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G457231_T01 (Zea mays), 5'ss of exon 6
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag-------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||| ||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| ||   |    || |  |        
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCGCTGATGAGGgtaatata----tccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G166091_T01 (Zea mays), 5'ss of exon 6
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| || ||||| || || || ||||| ||||||||||||||||| |||||| ||||||| ||||  ||     ||  |||  || |   ||   |  |  |  || |  ||  | | | ||  |||| ||   |    |               
GTTGTGGACTGTCGCATGTGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCATAGAGTTCGCTGATGAGGgtaatata----tccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G398795_T01 (Zea mays), 5'ss of exon 6
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag
||||| |||||||  || ||||| || || || | ||| ||||||||||||||||| |||||||||||||| ||||  ||     ||  |||  || |  | | |  |                                                  
GTTGTGGACTGTCACATGTGTGGGGACCCAAATTTAGTCCTTAGgtttgctttcatagagttcactgatgagggtaatata----tccatatccaacc-atgtttcag--------------------------------------------------

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G456149_T01 (Zea mays), 5'ss of exon 6
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtcattttgggacttgtag--------
||||| |||||||| ||  |||| || || || ||||| ||||||||||||||| | |||||||||||||| ||||  ||     | || |   ||| | |  |||   || |  || |  ||  | | | ||  |||| ||   |    |               
GTTGTGGACTGTCGCATGCGTGGGGACCCAAATTCAGTCCTTAGGTTTGCTTTCGTAGAGTTCACTGATGAGGgtaatatatccatatcca-acaatgtttcaatt---tacttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccag

upper sequence: AT4G10610.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G173428_T02 (Zea mays), 5'ss of exon 3
GTTGTTGACTGTCGTATATGTGGTGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattagtttctctatgtaatctgtttattggataatgcctgtaagtgcttggtttatggtttgtca--ttttgggacttgtag------
||||| |||||||| || ||||| || || |||||||| ||| |||| || ||||| |||||||||||||| ||||  ||     ||  |||  || | | ||      |  |  || |  ||  |   | ||  |||  |    |  ||    |  | |      
GTTGTGGACTGTCGCATGTGTGGAGACCCAAACTCAGTCCTTCGGTTCGCCTTCATAGAGTTCACTGATGAGGgtaatata----tccatatccaaccagatttcaatttgcttactttgtgtaatgaatctactgttcattgggtaatgaacatccttgttccag

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|86046042|gb|DR341797.1|DR341797
EST:     TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG                         TGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
genomic: TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattag ... ggacttgtagTGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
EST: gi|116466690|gb|EG509282.1|EG509282
EST:     TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG                         TGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
genomic: TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattag ... ggacttgtagTGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
EST: gi|116466689|gb|EG509281.1|EG509281
EST:     TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG                         TGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
genomic: TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattag ... ggacttgtagTGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
EST: gi|116412046|gb|EG454638.1|EG454638
EST:     TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAG                         TGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC
genomic: TGATCCCAACTCAGTACTTAGGTTTGCTTTCATCGAGTTCACTGATGAAGgtatcattag ... ggacttgtagTGGGTGCAAGGACTGCTCTGAATTTGTCTGGGACGATGCTTGGATTCTATC