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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacactcgcaaccattatttacccttttgtcttgatatccttggaactttcatattatcaaatccaacttaaaatggaacccatgcatgaccttcttgatatgttcatatataatggttattttagttagcagctcacagattgatttttttcattatcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG

Basic information

species Oryza sativa
transcript LOC_Os01g47262.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g47262.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GLYMA01G03710.1 (Glycine max), 3'ss of exon 7
gtaacactcgcaaccattatttacccttttgtcttgatatccttggaactttcatattatcaaatccaacttaaaatggaacccatgcatgaccttcttgatatgttcatatataatggttattttagttagcagctcacagattgatttttttcattatcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG
                                                       || |  | | ||||  | |  |  ||  | |  ||      ||  |||     | | | |||       |   ||  |  |||  |   |  | || |  || || ||    ||||||| ||||| ||||  |||||| | |||||  | ||||||||||||||||| |||||||||
------------------------------------------------------gatcactatagccaaaattacttttaaaacctaaat------ctctata-----aaagacaatatcctcctggtttgacttctctaacccttctcttctaaataatttt----agACACATCCTTCTCAAAGTTGTTTCATGTCATCGGTGGATCTGCACACTCAATATTCCTACCAG
















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|44677600|gb|CR291034.1|CR291034
EST:     TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACAT                         ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
genomic: TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACATgtaacactcg ... tcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
EST: gi|218493474|gb|FG952533.1|FG952533
EST:     TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACAT                         ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
genomic: TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACATgtaacactcg ... tcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
EST: gi|33658750|gb|CF281363.1|CF281363
EST:     TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACAT                         ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
genomic: TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACATgtaacactcg ... tcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
EST: gi|29670555|gb|CB666830.1|CB666830
EST:     TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACAT                         ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
genomic: TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACATgtaacactcg ... tcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
EST: gi|88226876|gb|CI224644.1|CI224644
EST:     TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACAT                         ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
genomic: TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACATgtaacactcg ... tcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA
EST: gi|86496637|gb|CI139270.1|CI139270
EST:     TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACAT                         ACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTTAA
genomic: TACATGCTATTTTATCGGAGCAATCACTTTACCCTGCAGGGTGGATACATgtaacactcg ... tcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggttattttagttagcagctcacagattgatttttttcattatcttttccagACACACCCTTCACAAACGTGTTTCTTATCATCAATTGATCTGCACACTCAATACTCCTACCAG
                                 tttttttcattatctt  CT-rich tract
                            attgatttttttcatt  TA-rich tract