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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgtagaaagttttagcgactgcataaatattaaaatagaaacacatgtgcaacagttatcttcgtagtatatataaaaatatgagattatatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAATATTCAGCGGTGCGCAGAGATACAGACAATACCAAATTTAAGTCATCTA

Basic information

species Oryza sativa
transcript LOC_Os02g27950.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g27950.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G056773_T01 (Zea mays), 3'ss of exon 6
----------------------ggtgtagaaagttttagcgactgcataaatattaaaatagaaacacatgtgcaacagttatcttcgtagtatatataa----aaatat-gagattatatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAATATTCAGCGGTGCGCAGAGATACAGACAATACCAAATTTAAGTCATCTA
                      ||| | ||| |||  |   |      | |    |    | ||| | ||     ||||  |  ||| ||| || || ||    || ||| | |||||| | |||||||||| || ||||   ||| ||||||||| ||||||||||||||||||||||||||||| ||||| ||||| || || || | ||| |  ||| || |  
gtaagcctaggcttctgtttttggtct-gaatgttgcaagtataatgaagactgaagtgcataaaaatatagtatacaggcacattcttagcatttaaaatcttaagtattgtgattatgtctgcagGAGAGAGGCTTATTCCTGGGTGATGACTTGGACCATGATGAAGAGATAAAATATTCAGCAGTGCGTAGAGACACCGATAACAGCAAGTACAAGCCACCAT

upper sequence: LOC_Os02g27950.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G829738_T01 (Zea mays), 3'ss of exon 6
----------------------------ggtgtagaaagttttagcgactgcataaatattaaaatagaaacacatgtgcaacagttatcttcgtagtat-----atataaaaatatgagattatatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAATATTCAGCGGTGCGCAGAGATACAGACAATACCAAATTTAAGTCATCTA
                            ||| |  |  |||  |   || |   | |    |    | ||| | ||     ||||  |  ||| |||| |     |||| ||    ||||||||| | || ||||||| || ||||   ||| ||||||| | ||||||||||||||||||||||||||||| ||||| ||||| || || || | ||| |  ||| || |  
gtaagcttaggctcatatttctatttttggtctc-agtgttgcaagtacagtgaagactgaagtgcataaaaatatagtatacaggcacattcttagttttaaagatatgaagtattgagattatgtctgtagGAGAGAGGCTTATTCCTGGGTGATGACCTGGACCATGATGAAGAGATAAAATATTCAGCAGTGCGTAGAGACACCGATAACAGCAAGTACAAGCCACCAT
















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|33797329|gb|CF324527.1|CF324527
EST:     TAGCTAGAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAG                         GAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
genomic: TAGCTAGAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAGgtaagcctct ... atatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
EST: gi|58689025|gb|CK077712.1|CK077712
EST:     TAGCTAGAGAAATAGAGGGAGAAGAT-CAAAAGATATGCATCTTGCTGAG                         GAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
genomic: TAGCTAGAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAGgtaagcctct ... atatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
EST: gi|56157273|gb|D39206.2|D39206
EST:     AGATACAAAAGATATGCATCTTGCTGAG                         GAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
genomic: AGATACAAAAGATATGCATCTTGCTGAGgtaagcctct ... atatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
EST: gi|33675902|gb|CF304141.1|CF304141
EST:     TAGCTAGAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAG                         GAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
genomic: TAGCTAGAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAGgtaagcctct ... atatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
EST: gi|428890|gb|D25046.1|D25046
EST:     AGATACAAAAGATATGCATCTTGCTGAG                         GAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
genomic: AGATACAAAAGATATGCATCTTGCTGAGgtaagcctct ... atatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
EST: gi|2310139|gb|C26294.1|C26294
EST:     GAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAG                         GAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA
genomic: GAGAAATAGAGGGAGAAGATACAAAAGATATGCATCTTGCTGAGgtaagcctct ... atatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgtgcaacagttatcttcgtagtatatataaaaatatgagattatatttgcagGAGAGGGGTTTATATTTGGATGATGACTTTGACCATGATGAAGAGATAAAATATTCAGCGGTGCGCAGAGATACAGACAATACCAAATTTAAGTCATCTA
                 ttcgtagtatatataa  TA-rich tract