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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaagtgaaattctagttttttcttatttttttgcaacaatcaaattctattgtagttttgtgattatctttgtatcctgaactcaagaacttgattttggtctgcatacaacattgcag

Basic information

species Arabidopsis thaliana
transcript AT1G69340.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g05660.1 (Oryza sativa), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaag---------tgaaattctagttttttcttatttttttgcaacaatcaaattctat-tgtagttttgtgattatctttgtatc-ctgaactcaagaacttgattttggtctgcatacaacattgcag
| || || ||||| || |||||||| |||||||| |||||||| || || |||||||| || |||||| ||||||||||||| || | ||| ||  |||||| | | ||          ||||    || ||  ||    || ||||| |       ||| |||  | |    |||    | |  |  |  |    ||   ||| | || ||||||   | |||   |  | |   
GCCCTAAATATGCTGTCAAGTATCACACAGCTGCAGAGAATGCACTTAGCCACTGCTACAGGTCTTGTTTGGAACTTCTCATTGAGAATGGTCTGGAAAGgtatattaaaagcaccatttgaatgcatatttggtttgggttgttttgaagttcctgaatgctacatttcacattgcatatgttgtaattccatcaaagctaagtattttattttgcctttcatgtgat-tag---

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os10g30750.1 (Oryza sativa), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaa-----gtgaaattctagttttttcttatttttttg-caacaatcaaattctattgtagttttgtgattatctttgtatc----ctgaactcaagaacttgattttggtctgcatacaacattgcag-
| ||||| ||||| || |||||||| |||||||| |||||||| || |||||||||||  | |||||| ||||||| ||||| || | ||| ||  ||||||   || |     |||    || | || |||  |   |  ||  || || ||  | | ||   |   |       |   |||| |||    |        || | ||  ||||  |  |  |   |  |      
GCCCCAAATATGCTGTCAAGTATCACACAGCTGCAGAGAATGCACTTAGTCACTGCTACCGTTCTTGTTTGGAACTCCTCATTGAAAATGGCCTTGAAAGgtacttgtataatcgtgtggatcaaattctttaatccgtagttaacatcattcctagtttaacatgtatgcactgctggttttgaatcaacgcatgctgttagtaatttcttttaattggtcttttatttcattag

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G100707_T01 (Zea mays), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtg-tgtgaagtgaaattctagttttttcttatttttttgcaacaatcaaattctattgtagttttgtgattatctttgtatcctgaactcaagaacttgattttggtctgcatacaacattgcag
| || || ||||| ||||||||||| |||||||| |||||||| || || |||||||| || |||||||| ||||| ||||| || | ||| ||  ||||||  |   |  |   ||   |     |  |||    |||  |||| | |     | || | ||    ||   |     |     |||      | |  | ||                        
GCCCAAAATATGCTGTAAAGTATCACACAGCTGCAGAGAATGCGCTTAGCCACTGCTACAGGTCTTGTCTAGAACTGCTCATTGAGAATGGCCTTGAAAGgtactcctatttattatgaaaaagggtatttacaagttt--aacattaagggcttgtt-tggtcgcatggggaatggaggggattgag---gggcatataatccca--------------------

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM5G836588_T01 (Zea mays), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaagtgaaattctagttttttcttatttttttgcaacaatcaaattctattgtagttttgtgattat-ctttgtatcctgaactcaagaacttgattttggtctgcatacaacattgcag---
| ||||| ||||| || |||||||| |||||||| |||||||| || |||||||||||| | || ||  ||||||| ||||| || | ||| ||  ||||||    | ||    ||  |  ||   ||| | ||  |      | |   |    ||  |  ||  || ||  |  ||   ||  ||||||  | |   | | |    | |   |     ||| ||    
GCCCCAAATATGCTGTCAAGTATCACACAGCTGCAGAGAATGCACTTAGTCACTGCTATCGGTCCTGCTTGGAACTGCTCATTGAGAATGGTCTTGAAAGgtacacgtaggatcatattgcttaaatct-agttgctaattttagtttgacaa-atgatgtttgggtcatcctgtttcacatattgaactttatattattagtaatatttctgttgcttatttcattag

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv01s0011g00870.t01 (Vitis vinifera), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaagtgaaattctagttttttcttatttttttgcaacaatcaaattctattgtagttttgtgattatctttgtatcctgaactcaagaacttgattttggtctgcatacaacattgcag
| ||||||||||||||||| |||||||| ||||| ||||||||| | |||||||||||| | ||||| || |||||||| ||||| | ||| || || ||||  ||    ||  ||   |  ||    | |||| |||     |   | ||| | |  |   ||  |   | | ||| | || | |      | | || | |||  |   |||       |||||
GTCCCAAGTATGCAGTAAAATATCATACTGCTGCAGAGAATGCTTTGAGTCACTGCTATCGGTCTTGCCTTGAACTTCTTATAGAAAATGGCCTTCAGAGgttggt----tgctatcagatgttacattcatttctttcttgta--tagattgt-tcatcacttgttacctttttttttttcttaatgaacgggaatttagtttaattgacatttttggatgcag

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ30302 (Selaginella moellendorffii), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaagtgaaattctagttttttcttatttttttgcaacaatcaaattctattgtagttttgtgattatctttgtatcctgaactcaagaacttgattttggtctgcatacaacattgcag
| ||    || || || |||||||| ||||||||||| ||||| || ||||| |||||||| |||||||| || || || || ||    |  ||  ||||||  ||            | ||| | ||  |  |   ||      |  | || | |  |  ||||||  |||                                                     
GTCCTCGATACGCTGTGAAGTATCACACAGCTGCTGAAAATGCCCTTAGTCATTGCTATAGGTCTTGTCTTGAGCTCCTAATCGAGCACGACCTTGAAAGgtaagt------------ttgttatctcaaacctcactgt-----ttgagttttttctt--ttttgttcttag----------------------------------------------------

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ24833 (Selaginella moellendorffii), 5'ss of exon 4
GACCCAAGTATGCAGTAAAGTATCATACAGCTGCTGAGAATGCTCTAAGTCACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaagtgaaattctagttttttcttatttttttgcaacaatcaaattctattgtagttttgtgattatctttgtatcctgaactcaagaacttgattttggtctgcatacaacattgcag
| ||    || || || |||||||| ||||||||||| ||||| || ||||| |||||||| |||||||| || || || || ||    |  ||  ||||||  ||            | ||| | ||  |  |   ||      |  | || | |  |  ||||||  |||                                                     
GTCCTCGATACGCTGTGAAGTATCACACAGCTGCTGAAAATGCCCTGAGTCATTGCTATAGGTCTTGTCTTGAGCTCCTAATCGAGCACGACCTTGAAAGgtaagt------------ttgttatctcaaacctcactgt-----ttgagttttttctt--ttttgttcttag----------------------------------------------------

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|116483352|gb|EG525944.1|EG525944
EST:     CACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAG                         TATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACC
genomic: CACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaag ... aacattgcagTATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACC
EST: gi|116484633|gb|EG527225.1|EG527225
EST:     CACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAG                         TATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACC
genomic: CACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaag ... aacattgcagTATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACC
EST: gi|116483396|gb|EG525988.1|EG525988
EST:     CACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAG                         TATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACC
genomic: CACTGCTATAGATCTTGTCTGGAACTTCTCATAGATAGTGGGCTACAAAGgtgtgtgaag ... aacattgcagTATCGCTCTGGGCTGTATATACACAGAAGCCAAAAACTATCCCCGAGAACC