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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g65090.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G400604_T01 (Zea mays), 5'ss of exon 7
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgat-cacttcttgttca-tgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatca-tagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
||||||||||||||||| ||||| ||||| |||||||||||||| ||||||||||||||||| |||||||||||||||||||||||||  |  ||| | | || ||   || ||  | |    |||| |  | |  ||| ||||| ||||||| |   | || |||||  | ||||| |  ||                                                                                                      
GCTTTTGCAATGACGGGTTGGCGTCTTGGTTACCTTGCAGCCCCTAAACATTTTGTTGCAGCATGTGGAAAGATCCAAAGCCAGgtgaaacgattcatttccagtgtttctttatctctaatatgttaaa-ggttaagtgatgtggtactgcacttctagtaaaactaata-tttgtaagatcgtc---------------------------------------------------------------------------------------------------

upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA18G02250.1 (Glycine max), 5'ss of exon 7
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
 | ||||||||||| || ||||| ||||| ||  ||||    |||||||||||||||||||| |  |||||||| ||||||||||| || |  | || || ||     | |   |||| | | | |    |   |   || | | ||| |  | |       || |  ||     |  |||| | |  | |                                                                                           
ACATTTGCAATGACTGGTTGGCGGCTTGGGTATATTGCTTGTCCAAAACATTTTGTTGCAGCATTCGGAAAGATTCAAAGCCAGgt-atgatgtattttttatttcctttt---tgtgaattat-gcacaactca---atatcaaacttc--tcttgatttccttttcctccaagacatctaaacagatgctta----------------------------------------------------------------------------------------

upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G14720.1 (Glycine max), 5'ss of exon 7
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtg-atcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgtta-attctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
|| ||||||||||| || ||||| ||||||||  |||| |  |||||||||||||||||||| ||||||||||||||||| |||||     || | || |    || ||| |    ||  ||  ||     ||  |   ||   ||  | |||| |  ||    | ||  |||| || || ||  |  || ||                                                                                           
GCCTTTGCAATGACTGGTTGGCGGCTTGGATATATTGCTGGTCCAAAACATTTTGTTGCAGCATGTGGAAAGATCCAAAGTCAGgtatgctacattttttattggccacttt---cgta-agccttaccctatacaagtatac-atcatacattttttta----tttccttttgctacatcctccatgacatc-------------------------------------------------------------------------------------------

upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA11G36190.1 (Glycine max), 5'ss of exon 7
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
 | ||||||||||| || ||||| ||||| ||  |||| |  ||||||||||||||||| || |||| |||||| ||||||||||| ||    | || | | |     | |   ||| ||      | ||| ||  | || |  |  |||   |  | | ||     | ||   |  | | | |                                                                                                  
ACATTTGCAATGACTGGTTGGCGGCTTGGGTATATTGCTGGTCCAAAACATTTTGTTGCTGCATGTGAAAAGATTCAAAGCCAGgt-atgctgtattttccgtttccatttttttgtttatgcacaactgaagtttttatttccttttgctccaatacataatagatatttaagttttaccatat-------------------------------------------------------------------------------------------------

upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA11G36200.1 (Glycine max), 5'ss of exon 8
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgt--gatcacttcttgttcatgcaactataaat-gtgtagtgttgagtgatgtagtcatgtga--tactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
 | ||||||||||| || ||||| ||||| ||| |||| |   ||||||||||||||||||| || |||||||| ||||| |||||  ||| | || || ||        | | |||  || |    | | |     | |  | |    | ||   |  ||  |||  | | | || | |  ||                                                                                                       
ACATTTGCAATGACTGGTTGGCGGCTTGGGTACATTGCTGGTACAAAACATTTTGTTGCAGCATGCGGAAAGATTCAAAGTCAGgtatgatgaatttttatttccatttttgtgaattatgcacaactcaatatcaaacttctcttgatttctttttcctccaagacatctaaattagatgctt-------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA05G31490.1 (Glycine max), 5'ss of exon 6
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtg-atcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
|| ||||||||||| || ||||| ||||||||  |||| |  |||||||||||||||||||| ||||||||||||||||| |||||     || | || |    |  ||| |   |    ||  ||     ||  | |||| |          | || |       |     |      || |  | |  | ||                                                                                         
GCCTTTGCAATGACTGGTTGGCGGCTTGGATATATTGCTGGTCCAAAACATTTTGTTGCAGCATGTGGAAAGATCCAAAGTCAGgtatgctacattttttattggtcactttctttcgtaagccttaccctataca-tcatata---------tgtcttgatttccttttcctacagcctccatgacatcttac-----------------------------------------------------------------------------------------

upper sequence: LOC_Os01g65090.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0001g04860.t01 (Vitis vinifera), 5'ss of exon 7
GCTTTTGCAATGACGGGCTGGCGACTTGGATACCTTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcacttcttgttcatgcaactataaatgtgtagtgttgag--tgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcag
 ||||||||||||| || ||||||||||||||||| || |  |||||||| ||||| ||||| |||||||| || || |||||||| ||||     |   | | | |    ||||        |  |   |||   | | |    |||    | |     |   |  | | |     | |  |                                                                                                     
ACTTTTGCAATGACTGGTTGGCGACTTGGATACCTAGCTGGTCCAAAACACTTTGTGGCAGCATGTGGAAAAATTCAGAGCCAGgtaatcatcatctccacctactaaaccaaattctccccttccacattgagaaaatgaataaataaataaatgctgcaaggcagttattacccaagtaatg----------------------------------------------------------------------------------------------------

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|29686132|gb|CB682407.1|CB682407
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|428197|gb|D24345.1|D24345
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGNAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|29644554|gb|CB649561.1|CB649561
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|29644410|gb|CB649417.1|CB649417
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|86849106|gb|CI295847.1|CI295847
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|29683532|gb|CB679807.1|CB679807
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|87016653|gb|CI275655.1|CI275655
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: gi|29679352|gb|CB675627.1|CB675627
EST:     TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG                         TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG