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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttggagttatctgttgaagggtaccgtagtactgtagtgccactacttactacttcgagaaccaaccttactatttgtgcgttttgcatgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG

Basic information

species Oryza sativa
transcript LOC_Os01g56580.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56580.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G116086_T01 (Zea mays), 3'ss of exon 4
atttggagttatctgttgaagggtaccgtagtactgt-agtgccactacttactacttcgagaaccaaccttactatttgtgcgttttgcatgtgtttca-gTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG
|| ||  |||||   ||           || |||| | |  | ||   |||||||        || |||  |   || | |  ||| | |||  | |||| |||||||||| || ||||||||| |||| |||||||| |||||||| || || || || ||||||||||||
atatgatgttattacttattaatatttttactactattaaggacaaatcttactagccattttactaac--tgtcatgtttttgttgttcatccgcttcaagTGCTCTGAACGGGTGTTATGGTGTACCATGGGTTCATTACAAAGGTCGACAAGGAGATTATTATGTTCTG

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 4
--------------------atttggagttatctgttgaagggtaccgtagtactgtagtgccactacttactact-tcgagaaccaaccttactatttgtgcgttttgcatgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG
                    ||||  |   |  |  | |||  |||     |  | || |      |  | ||| | |    | | ||   |   ||||||   |||  |||   |   ||  |||||||||| |||||||| || ||||||||||| ||||| || ||||| || || |  ||  || ||
gtaggtaatctgttctttgtatttaaa-caacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgta-atttgacattgat--aagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
















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|29629024|gb|CB634035.1|CB634035
EST:     AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAG                         TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
genomic: AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcac ... tgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
EST: gi|29623307|gb|CB628318.1|CB628318
EST:     AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAG                         TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
genomic: AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcac ... tgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
EST: gi|58661787|gb|CK050467.1|CK050467
EST:     AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAG                         TGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA
genomic: AACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcac ... tgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttactacttcgagaaccaaccttactatttgtgcgttttgcatgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG
                        ttactattt  TA-rich tract