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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaaacctctttccctcttatgtattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA

Basic information

species Arabidopsis thaliana
transcript AT1G63640.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gtttaaacctctttccctcttatgtattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
   || |  | ||| |     |  | | ||    | ||  || | |   | || | ||||  || || | ||| | |  |||   ||  ||||||||||  || | || |||  | ||||||||  |||||||||| |  ||||||||||| ||||| |||||||| |||||||| |||||||||||
--gtatatttttttacaatggaaatctggtataagcttatctgtgtg-caaataa-attctaatactta-tctttcaatttac--agCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os06g36080.1 (Oryza sativa), 3'ss of exon 11
------------------------------------------------gtttaaacctctt-tccctcttatgtattgttagcgttttcctctataatata--tgatattcatatcctgaatctgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
                                                | ||| ||   || |||     | |||  |  |   |      |||  ||| |  | || ||||| |  |  ||   || |||    |||| ||||| |||   || | || |||| ||||| ||||  ||||||||||||||||||||||||| ||||| |||||||| ||||| || || ||||| ||
gtaagaataaaagcgacacttaagtgaaatttgttgtgctttagtgttgattatactaattgtccagagaaagtaccgaaattttgcagtgctaacatacagtttatgttcat-ttgtatattcattttctggc-tagATGAGGTATTCAAGGAAATTCAACCACTAATTAGATCAGTTCTTGATGGCTATAATGTTTGTATTTTTGCGTATGGTCAAACTGGATCAGGGAAAACATA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G062034_T01 (Zea mays), 3'ss of exon 4
----------------------------------gtttaaacctctttccctct-tatgtattgttagcgttttcctctataatatatgatat-tcatatcctgaatctgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
                                  |||||| |   ||     || || ||| |  ||   |    ||   | ||| ||  | | ||||||| |   | | || | |  | ||||   |||||||   |||| ||| ||| ||||| ||||  ||||||||||||| |||||||| || ||||| |||||||| ||||| || ||||||||  |
gtgctaatgacattgaaataaaaatatatcttttgtttaatctatttaattgctataagtactcataaaatagcactgagttatacattttttgtcatatctttc-tttcttgtttgttatagATATGGTTTTCAACGATATTCGGCCACTAATTAGATCAGTTCTTGATGGCTACAATGTTTGCATTTTTGCATATGGTCAAACTGGATCAGGAAAAACACA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G323622_T01 (Zea mays), 3'ss of exon 4
gtttaaacctc---tttccctcttatgtattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatcttatgt--agAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
   || | ||    | |     |  || | | | |   ||      | ||  ||   |||||  |  ||    | | ||  || || |  ||  || || ||||  ||||  |  ||  | ||  ||||  |||||||||| | |||||| || || |||||||||||||| |||||||| ||||| |||||
--gtatatcttaagtatgttaatggtgcaatctaaaatttaaaagttgtataattgaatattactcaccaagttttcttgcctaatttccagTTGAAGTATTCTCTGATATCCAGCCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGTTCAGGAAAGACTTA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
----gtttaaacctctttccctcttatgtattg-----ttagcgttttcctctataatatatgatattcatatcctga--atctgttatc-ttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
    |||     || ||    |   |   ||||     |||   |     | | || | |   |   | |||| ||||  ||    |||  || |  ||  |||||||| |  || |  | |||| | || |||||  |||| ||||| |  || |||||||| ||||| ||||| |||||||||||||| ||||||||
gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G124883_T01 (Zea mays), 3'ss of exon 4
-----------gtttaaacctctttccctcttatgtattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatcttatgtagAG--GAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
            | | ||     ||     |  | || | | |   ||      | ||  ||  ||||||  |  |     | | ||| || || |  ||  ||||| ||||  ||||  | |||  | ||  ||||  |||||||||| | |||||| || || |||||||||||||| ||||| || ||||| |||||
gtatatcttaactcttaagtatgttattaatggtctaatctaaaatttaaaagttgtatcattggatattgctcacaaagttttcttacctaatttccagCTGAGGTATTCTCTGATATCCAACCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGATCCGGAAAGACTTA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G01800.1 (Glycine max), 3'ss of exon 13
--------------------------------gtttaaacctctttccctcttatgtattgttagcgttt-tcctctataat--------ata-tgatattcatatcctgaatc--tgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
                                 ||   |    | |   | |||| |||| || |   || |  |||||  |        ||| | || || |  |  |   ||  | || |  | |||||||||  | |||   || |||| |||||| ||||||||  |||||||||| || ||||||||||||||||| |||||||| ||||| || ||||| || ||
gtactgcgtttttttttcttttctctttcatgattattattattattattattat-tattattggtacttgttttctattgttgaaattgatagtaatgtttaacttatatgtcaatatttttctttgtagAGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACTGGCTCGGGAAAGACATA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA05G37800.1 (Glycine max), 3'ss of exon 13
-------gtttaaacctctttccc-tcttatg-----tattgttagcgttt-tcctctataat--------ata-tgatattcatatcctgaatc--tgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
        |||     ||||| |  | | |||     |||| ||||   || |  |||||  |        ||| | || ||||  |  |  |||  | || |  | ||||| |||  | |||   || |||| |||||| ||||||||  |||||||||| || ||||||||||||||||| |||||||| || || || ||||| || ||
gtactgcatttttttttcttttctatttcatgattattattattagtacttgttttctattgttgaaattgatagtaatgttcaacttatacatcaatatttttctttgtagGGGAAATATTCAAGGACACTCAACCATTGATTCGATCTGTTCTTGATGGGTACAATGTTTGTATATTTGCTTATGGTCAAACCGGCTCGGGAAAGACATA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv02s0025g03480.t01 (Vitis vinifera), 3'ss of exon 14
---------------------------------------------------gtttaaacctctttccctctta---tg-tattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
                                                     | | |  ||| | || ||||   || | |||||||       || | |||  ||  |  || || |  |  ||   || | ||||  ||||||||| || ||||| |||| |||||||||||||||  | |||||||| || ||||| |||||||||||||||||||| ||||| ||||||||||| ||
gttatcttcttataatattttatatttggccttgtttctttatttgtatatcctcagatttctattccacttagcatgcttttgttaggaaagaacttt-taacttactacctttat-ttgtatatacattgtgttat-cagAGGAGGTATTTTTAGACACTCAACCATTAATTCGATCTGTACTTGATGGATACAATGTCTGTATATTTGCCTATGGTCAAACTGGCTCTGGAAAAACCTA

upper sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
gtttaaacctctttccctcttatgtattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatct-tatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
                                         |   |  |||||  |  ||  ||  | |   ||  |  |  ||| ||| ||||||||  | ||| | |  || || ||||||||  | |||||||| |  || || ||||| ||||| ||||| |||||||||||||||||||| ||
----------------------------------------gtacgttctatattttgctccaatagtcacaatgacacgtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA

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|125151925|gb|EL183817.1|EL183817
EST:     ATCGGTTATTTAAGTTCAACAAAGTTTTCGATCAAGCAGCAACAACAAG
genomic: ATCGGTTATTTAAGTTCAACAAAGTTTTCGATCAAGCAGCAACA-CAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgttttcctctataatatatgatattcatatcctgaatctgttatcttatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA
                                          ttatctt  CT-rich tract
         tctataatatatgata  TA-rich tract