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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttcttttgtttaactgtttttcttgtaaacttggttttcctgttcttatttttgtcggcatttagctgctagtgtggactgataggtatttgtttgtttcag

Basic information

species Oryza sativa
transcript LOC_Os02g10070.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 7
GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgttt--ggcttcttttgtttaactgtttttcttgtaaacttggttttcctgttcttatttttgtcggcatttagctgctag-tgtggactgataggtatttgtt-tgtttcag----------------------------------------------------------------
||| ||||| |||||||| ||||| ||||||||||| ||||||||||| |  || || ||||||||||||||||| ||||||||||||||||| || ||||| |  | |||| | | || |     |||   | ||||  ||       |||  |   ||  |    |||||  |  |||  | || | |   |    |||  | | ||| ||                                                                
GGGCCTCTCAATTCCAGAATGCCAAAAAGTGCTGCCAACAGCAGTTAAGGGCGGTGAACCTTTGCCTGAGGGTCTCCTTTGGCTTCTTTTGACGGGGAAGgtatatgccttcctatattcattcaatttaaatttaaaaatgtgccaaatgtgttctgttaagaatacatttctcgcctatctttgtatttccattcctttaatatattttagtttttttcccaattctcatcctatttctataagttttaaggctgtgttttttttcttgtttcag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G064023_T04 (Zea mays), 5'ss of exon 7
GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgttt--ggcttcttttgtttaactgttttt--cttgtaaacttggttttcctgttctt---atttttgtcggcatttagctgctagtgtggactgataggtatttgtttgtttcag
|||||||||||||||||||||||| ||||||||||| ||||||||||| | ||| || ||||||||||||||||| ||||||||||||||||| || ||||| |  | || | | | ||    |  | ||   ||  |||  ||     | |||||     |  |  | |   |||||  || |  |   || ||   |  |              
GGGTCTCTCGATTCCAGAGTGCCAAAAAGTGCTGCCAACAGCAGTTAAGGGTGGTGAACCTTTGCCTGAGGGTCTCCTTTGGCTTCTTTTGACAGGGAAGgtatatgcctgcctatattcttttaatcttaatttacaaatgtgtcaaacgtgttccataaaactaggacaatattta-ttgttgataaagaatgg-ggaca--------------

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 6
GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgttt--ggcttcttttgtttaactgtttttct-tgtaaacttggttttcctgttcttatttttgtcggcatttagctgctagtgtggactgataggtatttgtttgtttcag
||| ||||| |||||||||||||  ||||||||||| ||||||||| | | ||| || ||||||||||||||||| || |||||||||||||| || ||||| |  | || | | | || |  |  |||    |||       || ||||       |  |  |     |||||  || |  |   || ||    ||               
GGGCCTCTCAATTCCAGAGTGCCGAAAAGTGCTGCCAACAGCAGTTGAGGGTGGTGAACCTTTGCCTGAGGGTCTCCTCTGGCTTCTTTTGACAGGGAAGgtatatgcctgcctatattcatttaatttcgaatgtgccaaaagtgttcca---taaaactaggaaaatattta-ttgttgattaagaatggggagtggggaca--------

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G16770.1 (Glycine max), 5'ss of exon 7
GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttg-gcttcttttgtttaactgttttt--cttgtaaacttggttttcctgttcttatttttgtcggcatttagc-----tgctagtgtggactgataggtatttgtttgtttcag---------------------------------------
|||  | || ||||| || |||||||||  ||| ||    ||  ||   | |||||||||||||||||||| | |||| |||||||| ||||| |||||||| ||   |  ||||    ||     ||    |  | |  |||  | |    | |||| |  ||     || ||       | | |  |||   | |||  ||    | |||||                                          
GGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCAGGTGCTTTTCCTGGTGGGGAGCCTTTGCCTGAGGCTGTACTGTGGCTTCTATTGACAGGAAAGgtatgcaatagttttagaaaatcaaattgaattaattattttgaatattgcttacttaataatgcatatatataatccttgtacaaaggtgttttaatatctacac-tctgtttagattttgttgtataatctttgattcatacacttggtcacag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G42300.2 (Glycine max), 5'ss of exon 7
GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttctttt-----------gtttaactgtttttcttgtaaact-----tggttttcctgttcttatttt-tgtcggcattt-------agctgctagtgtggactgataggtatt-tgtttgtttcag--------------
|||  | || ||||| || |||||||||  ||| ||    ||  |||  | |||||||||||| ||||||| | |||| |||||||| ||||| |||||||| ||   |  |||            || || |  || | ||| | | |     |  |     | |  |  |||| ||  ||  |||       | |   | || | || |     ||||  | |||| ||||               
GGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCAGGTGCTTTTACTGGTGGGGAGCCTTTACCTGAGGCTGTACTGTGGCTTCTATTGACAGGAAAGgtatgcaatagttttagaaaatcaaattgaattaattattttgaatattactcataatgcatatataatccttttatgaaggtgttttaatatcaacacttggtttagattttgttgtataatctttgattcatacatttggtcacag

upper sequence: LOC_Os02g10070.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 7
GGGTCTCTCGATTCCAGAGTGCCAGAAAGTGCTGCCGACAGCAGTTAAAGATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggct-tcttttgtttaactgtttttcttgtaaacttggttttcctgttcttatttttgtcggcatttagctgctagtgtggactgataggtatttgtttgtttcag
|||| | || || || || ||||| |||||  | || |  |||      | ||| |||||| ||||||||||||| ||||||||||||||||| ||||||||  |  | | ||      ||  |   ||   | | || ||  |       |   | |         |  | ||   |  | || |   || ||| | ||   ||||   
GGGTATGTCTATCCCTGAATGCCAAAAAGTATTACCAAATGCAACACCTGGTGGAGAGCCTCTGCCTGAGGGTCTGCTTTGGCTTCTTTTGACAGGAAAGgtgggtttgtgttaaaaacaaaagacattacaggatacctgaatg----aatgaaaataggaggaagacattgcatgtcatatgaa--aattggtttatgag-gttt---

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|29614058|gb|CB619071.1|CB619071
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58693317|gb|CK082004.1|CK082004
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58658570|gb|CK047250.1|CK047250
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|14571277|gb|BI118645.1|BI118645
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|88573691|gb|CI665460.1|CI665460
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58599089|gb|CK009617.1|CK009617
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|29667252|gb|CB663527.1|CB663527
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|33794508|gb|CF323141.1|CF323141
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58678175|gb|CK066862.1|CK066862
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58668188|gb|CK056874.1|CK056874
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58611144|gb|CK038856.1|CK038856
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|29614020|gb|CB619033.1|CB619033
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
EST: gi|58690828|gb|CK079515.1|CK079515
EST:     ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAG                         GTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT
genomic: ATGGGGAGCCTTTGCCTGAGGGTCTACTTTGGCTTCTTTTGACCGGAAAGgtttggcttc ... tttgtttcagGTGCCAACCAAAGAGCAAGTTGATGCTCTATCAAAGGAATTGGCTAGTCGT