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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatcttcattcacctgtgatttgtgttgtcacgatttgcattactgatttcattctgtttctttcctag

Basic information

species Oryza sativa
transcript LOC_Os06g13810.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G143862_T01 (Zea mays), 5'ss of exon 2
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatcttcattcacctgtgatttgtgttgtc-acgatttgcattactgatttcattctgtttctttcctag
|||  |||||||||| || ||  |||||||||||||||| |||||||||||||||||||| |||||||| ||||| || ||||||||||||||||||||||||||||  |||   |||   ||||| | |||||  |          ||||||||  | | ||  |||||||   ||
CACAAACTACATTACTGATATCATCTGCAAGCGTGCAGATCTTGGTTACAACTATGGTGTTATCCTTATACCAGAAGGCCTGATTGATTTCATCCCAGAGgtttgac--tctatgttc---tgtgact-gtgttacccgtagaacatattactgacataactccttttcttttgaag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatcttcattcacctgtga-tttgtgttgtcacgatttgcattactgatttcattctgtttctttcctag
|||  |||||||||| || ||  |||||||||||||||| |||||||||||||||||||| |||||||| ||||| || |||||||||||||||||||||||||| || || | ||    || ||| ||||||||||||   | |  ||||||||  ||| ||| |||||||   ||
CACAAACTACATTACTGATATCATCTGCAAGCGTGCAGATCTTGGTTACAACTATGGTGTTATCCTTATACCAGAAGGCCTGATTGATTTCATCCCAGAGgtttggcactccttatgt-tctatgactttgtgttgtca--gtctatattactgacatcactct-tttctttttcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA09G01050.1 (Glycine max), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgt----------ttg-acaatcttcattcacctgtgatttgtgttgtcacgatttgcattactgatttcattctgtttctttcctag---------------------------------------------------------------
||| ||||| ||    ||| |||| || ||  | || ||| ||  ||||||||||||||| || |||||||| || ||||| ||||||||||| || |||||          ||| ||| | ||||      | | | |||  || || |  | |||| |    |||  ||| |  | || | |  |                                                               
CACTGACTATATCGTAGACGTTGTTTGTAAAAGAGCTGAAATTAATTACAACTATGGTGTCATTCTTATCCCTGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcacagttttcacaatttttttacttgcatt-tccctttatgcacttggaattatattttagtgctgttcatgtacaaccagtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgt---------ttgacaatcttca---ttcacctgtgatttgtgttgtcacgatttgcattactgatttcattctgtttctttcctag---------------------------------------------------------------
||| ||||| ||    ||  |||| || ||  | || ||| ||  |||||| |||||||| || |||||||| || ||||| ||||||||||| || |||||         ||  || | ||||   ||    | | |  |||||| || |  | |||| |   ||||   || |  |  | | |  |                                                               
CACAGACTATATCGTAGATGTTGTTTGTAAAAGAGCTGAAATTAATTACAATTATGGTGTTATTCTTATCCCCGAAGGTCTAATTGATTTCATACCTGAGgtatctatcactttgcagttttcacaattatttttttacctgtgtt-tccccctctgcacttgggattatgttttagtgttgttcatgtacaacctgtatgaatacacttctgatgatactcatttgtacttggtattgtgctatatgcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatcttcattcacctgtgatttgtgttgtcacgatttgcattactgatttcattctgtttctttcctag----------------------------
||| ||||||||    ||  || ||||||| ||||| ||||||||||||||||| ||||| || || || ||||| |||||||| || || || || ||||| ||    |  |||||        ||      |   ||  ||      | | || | ||| |  |||||  ||                              
CACAGACTACATGGTGGATGTTATCTGCAAACGTGCTGAACTTGGTTACAACTACGGTGTCATACTGATTCCAGAAGGTCTGATCGACTTTATTCCTGAGgtgtg----ttgtcattgtaaaaaaatagaatctactacttttaaaccgattaatataattgttcttcttaactgatgattaattttatttcatgacttctcag

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatc-------------ttcattcacctgtgatttgtgttgtcacg---------atttgcattactgatttcattctgtttctttcctag--
 || |||||||||   ||  |||||||||| ||||||||||||||||||||||||||||| || ||||| ||||| || || ||||||||||| || ||||| | | | |              || ||| | |  |  ||| |||  ||  |         ||     | |   |  |  |  || || ||| | ||  
TACAGACTACATTGTTGATGTTGTCTGCAAACGTGCAGAACTTGGTTACAACTATGGTGTTATACTTATTCCAGAAGGCCTTATTGATTTCATACCTGAGgtataatattgattataagacttatttatttaacccttttttttgtcctcttgtgaatgggtatccttttaagcaaacttgtcttgctttttttcaagtt

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ13842 (Selaginella moellendorffii), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatcttcattcacctgtgatttgtgttgtc-acgatttgcattactgatttcattctgtttctttcctag
 ||  |||  || || || |   | || ||| | || ||   |||| |  ||||||| ||||| |||||||| ||||| ||||||||||| || |||||||| |       || |||    |||  |  ||| || |   || | |    || |                       
GACGAACTCTATCACTGATACAATATGTAAGAGGGCTGAGAATGGTCAGCACTATGGCGTGATACTTATCCCTGAGGGGCTGATTGATTTTATTCCAGAGgtata-----ttttatttctttgttgtc-gtgctgactgagactcgtgcaacag-----------------------

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 9
lower sequence: EFJ12684 (Selaginella moellendorffii), 5'ss of exon 9
CACCGACTACATTACCGACATTGTCTGCAAGCGTGCAGAACTTGGTTACAACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaatcttcattcacctgtgatttgtgttgtc-acgatttgcattactgatttcattctgtttctttcctag
 ||  |||  || || || |   | || ||| | || ||   |||| |  ||||||| ||||| |||||||| ||||| ||||||||||| || |||||||| |       || |||  | |||  |  ||| || |   || | |    || |                       
GACGAACTCTATCACTGATACAATATGTAAGAGGGCTGAGAATGGTCAGCACTATGGCGTGATACTTATCCCCGAGGGGCTGATTGATTTTATTCCAGAGgtata-----ttttatttccttgttgtc-gtgctgactgagactcgtgcaacag-----------------------

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|88504577|gb|CI432083.1|CI432083
EST:     ACTATGGTNTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|29689204|gb|CB685479.1|CB685479
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|157650204|gb|EX449838.1|EX449838
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|88365473|gb|CI680112.1|CI680112
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|88369740|gb|CI680411.1|CI680411
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|58657805|gb|CK046485.1|CK046485
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|88581492|gb|CI698483.1|CI698483
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|58687019|gb|CK075706.1|CK075706
EST:     CCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: CCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|2800921|gb|AA754215.1|AA754215
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|33796706|gb|CF324221.1|CF324221
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|88584252|gb|CI701792.1|CI701792
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|88578785|gb|CI687736.1|CI687736
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|88432901|gb|CI690757.1|CI690757
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|5003496|gb|AU068645.1|AU068645
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
EST: gi|2312262|gb|C28417.1|C28417
EST:     ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAG                         GTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT
genomic: ACTATGGTGTGATCCTTATCCCAGAGGGTCTGATTGATTTCATCCCAGAGgtttgacaat ... tctttcctagGTTCAAAAACTCATTGCAGAATTGAATGAAATTTTGGCGCATGATGTTGTT