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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGTTCTGAGTACTGGAAATGGTGTCAATGGCTTCACACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataagacaattttttttgactaactgtttatgagacaattagtagtgatacttccgtcttttaatgtacactgatgagcgggcaaaatactcatatgtgtgttctatgcttcactctgtgcag

Basic information

species Oryza sativa
transcript LOC_Os01g64660.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g64660.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G836250_T02 (Zea mays), 5'ss of exon 6
CTTGTTCTGAGTACTGGAAATGGTGTCAATGGCTTCACACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtt-tataagacaatt-ttttttgactaactgtttatgagacaattagtagtgatacttccgtcttttaatgtacactgatgagcgggcaaaatactcatatgtgtgttctatgcttcactctgtgcag
|| |||||||| ||||||| |||||||||||||||||| || || || || || |||||||||||| |||| |||||||||||||||||| |||       |   || ||   | | |  || | |  ||    ||   | | ||   |      |||    |||||| |  |      ||   | | | ||  || |      | | | | ||||
CTCGTTCTGAGCACTGGAACTGGTGTCAATGGCTTCACGCTCGACCCTTCACTTGGGGAGTTCATACTAACCCATCCAGACATCAAGgttatatcttctcgtagcttcttcgttcagtccttgtcatgcac---gtgaagttgctcgggcaacagaatacttactgatcactgccactcatctccctctttgcattgtgacgcgcgcgc-gcgcag

upper sequence: LOC_Os01g64660.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0072g00770.t01 (Vitis vinifera), 5'ss of exon 7
CTTGTTCTGAGTACTGGAAATGGTGTCAATGGCTTCACACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataagacaattttttttgactaactgtttatgagacaattagtagtgatacttccgtcttttaatgtac--actgatgagcgggcaaaatactcatatgtgtgttctatgcttcactctgtgcag
|||||  | || ||||||| |||||| ||||| || || ||||||||||| || |||||||||||| | ||||| ||| |||| |||||    ||||   | |  |||||||  | |   |  |    ||||  | || |  || | |||  || | | |  |||      |     ||  |   ||||||| |                      
CTTGTGTTAAGCACTGGAACTGGTGTTAATGGATTTACCCTTGATCCATCACTTGGGGAGTTCATACTTACTCACCCAAACATTAAGgt----aagatt-tatcatttgactgtcaga--acaatcacattaaca-tgctgttttcctctaatattttccctacttgctgacatcttaaggagg-atatgtgggaa--------------------

upper sequence: LOC_Os01g64660.1 (Oryza sativa), 5'ss of exon 7
lower sequence: PP1S385_43V6.1 (Physcomitrella patens), 5'ss of exon 7
CTTGTTCTGAGTACTGGAAATGGTGTCAATGGCTTCACACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataagacaattttttttgactaactgtttatgagacaattagtagtgatacttccgtcttttaatgtacactgatgagcgggcaaaatactcatatgtgtgttctatgcttcactctgtgcag
 | || ||||| || ||   ||| || ||||||||||| || ||||| || || ||||||||||| || || || || ||||||||||||||||     || |  ||||| | ||  ||  ||    ||||       || | |     | ||     ||| |  ||   |  | |||  |  | | ||  ||                     
TTGGTACTGAGCACAGGTGCTGGGGTTAATGGCTTCACCCTCGATCCTTCACTTGGGGAGTTCATCTTGACGCACCCTGACATCAAGgtttatatctgtatgtcctttga-tgacatttcgtgttctaattttcctaaatgcatttaagtgtt--cccacatt--tgcatgaactaaac-cctacaagtccgt---------------------

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|29686739|gb|CB683014.1|CB683014
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|29621610|gb|CB626621.1|CB626621
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|38473796|gb|CF957928.1|CF957928
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|58588683|gb|CF986991.1|CF986991
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGAGATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|58590217|gb|CF988525.1|CF988525
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|29613014|gb|CB618027.1|CB618027
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|29617760|gb|CB622772.1|CB622772
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|33820806|gb|CF336207.1|CF336207
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|4714676|gb|AU055793.1|AU055793
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|27546650|gb|CA764792.2|CA764792
EST:     CACTCGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
EST: gi|29682614|gb|CB678889.1|CB678889
EST:     CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAG                         ATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT
genomic: CACTTGATCCATCTCTCGGGGAGTTCATATTAACTCATCCAGACATCAAGgtttataaga ... ctctgtgcagATACCAAAGAAAGGGAAGATTTATTCAGTGAATGAAGGGAATGCGAAAAAT