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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatatgcatatatcatatgtatatgcattgttgttatgatttgtagtcacgtatctctctgtgtttgccatgtattttgggcatctgttattctgtctctcttattatatttcttctttgtggtggtcatatttgctcattgctgttctctttatccaactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGAACAATCATGGCCACAAGGATTGTCTCTTGCAGAGACCATGAAGTTTCAG

Basic information

species Oryza sativa
transcript LOC_Os02g47220.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 12
gtataatatgcatatatcatatgtatatgcattgttgttatgatttgtagtcacgtatctctctgtgtttgccatgtattttgggcatctgttattctgtctctcttattatatttcttctttgtggtggtcatatttgctcattgctgttctctttatccaactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGAACAATCATGGCCACAAGGATTGTCTCTTGCAGAGACCATGAAGTTTCAG
                                                                      |  |   |         ||  |||     |      | |    ||| |  || |  ||||   ||||  ||||   || |  | || |||  ||| ||||||||  | ||||||||||  ||||| |||||||| |||||||| |||||||| ||||| ||||| ||||||||||||||||||||  | ||||||| ||||
--------------------------------------------------------------------gagttacagacccctcatttcaattaaataattaaaaatctctattttttgtttcggcgtggc--tattctctcaccact-tgtttttaatctcactatttagTGAACCAGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGAGCAATCTTGGCCTCAAGGATTGTCTCTTGCAGAAGCAATGAAGTATCAG

upper sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 11
gtataatatgcatatatcatatgtatatgcattgttgttatgatttgtagtcacgtatctctctgtgtttgccatgtattttgggcatctgttattctgtctctcttattatatttcttctttgtggtggtcatatttgctcattgctgttctctttatccaactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGAACAATCATGGCCACAAGGATTGTCTCTTGCAGAGACCATGAAGTTTCAG
                                                                        ||| |   ||    |  |   | |   ||| | || || | ||   || |  |||      ||||  || |   ||  | |  ||||   ||| |||||||| |||||||||||||  ||||| |||||||| |||||||| |||||||| ||||| ||||| ||||||||||| ||||||||  | ||||||| ||||
----------------------------------------------------------------agacccaacatttcgattaaataattaagaat--atctattttcttgttttgtctcatcatggc-----tattctcttaccccttgttttcttattttactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGAGCAATCTTGGCCTCAAGGATTGTCACTTGCAGAAGCAATGAAGTATCAG
















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|58660884|gb|CK049564.1|CK049564
EST:     GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCG
genomic: GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCG
EST: gi|58595654|gb|CK006182.1|CK006182
EST:     ACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
genomic: ACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
EST: gi|163923153|gb|EG709322.1|EG709322
EST:     GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
genomic: GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
EST: gi|88256807|gb|CI354588.1|CI354588
EST:     GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGTTAGCCCAGATGA
genomic: GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
EST: gi|33797218|gb|CF324473.1|CF324473
EST:     GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
genomic: GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
EST: gi|88664333|gb|CI687436.1|CI687436
EST:     GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
genomic: GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
EST: gi|58675617|gb|CK064304.1|CK064304
EST:     GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG                         TGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA
genomic: GCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatg ... aactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctttgtggtggtcatatttgctcattgctgttctctttatccaactgtttagTGAGGCTGATGAGATTCTGAAGATTTGCAATGTTATCGGTAGCCCAGATGAACAATCATGGCCACAAGGATTGTCTCTTGCAGAGACCATGAAGTTTCAG
              tcatattt  TA-rich tract