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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgcatttcatgcagcatctctctgctatgtgattcattataaggtgttacaggaaatgactttatctttgttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAGGTTTCAAGGTTCACCTGCGGTTATTACCTATCGTGTTCCCACAAAGGCT

Basic information

species Oryza sativa
transcript LOC_Os01g01307.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g01307.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G376727_T05 (Zea mays), 3'ss of exon 2
gtgagtgcatttcatgcagcatctctctgctatgtgattcattataaggtgttacaggaaatgactttatctttgttgcttct--agTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAGGTTTCAAGGTTCACCTGCGGTTATTACCTATCGTGTTCCCACAAAGGCT
|||||| |||||  |   ||||||||||||| | ||  |   | ||      ||||| |||||| || ||  || |  || ||  ||||||| ||||||| | ||  ||| |||| |||||||||||  |||||||||||| || |||||||| ||  ||||||| || ||||||||||||||| ||
gtgagtacattttgtaatgcatctctctgctttatgtgttcatgtagatcagtacagaaaatgatttcattattttgactccttcagTGGTGCCACTGCTACACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATTATTACGTACCGTGTTCCCACAAAGACT

upper sequence: LOC_Os01g01307.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G067476_T03 (Zea mays), 3'ss of exon 2
gtgagtgcatttcatgcagcatctctctgctatgtgattcattataaggtgttacaggaaatgactttatctttgttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAGGTTTCAAGGTTCACCTGCGGTTATTACCTATCGTGTTCCCACAAAGGCT
|||||| |||||  |   |||| || ||||| |     |   | ||  ||   | ||  |||||  ||| |||   | |||  ||||||| ||||||||| ||  ||| |||| |||||||||||  |||||||||||| || |||||||| ||  | ||||| || ||||||||||||||| | 
gtgagtacattttgtaatgcatatcactgctttacatgttcatgtacagt---aaagttaatga--ttaccttgact-ctttcagTGGTGCCACTGCTTCACACACATATGTCCTGGAGACCAAAACACAGGGCAGGTTCCAGGGTTCACCAGCTATCATTACATACCGTGTTCCCACAAAGACA
















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|5004937|gb|AU070175.1|AU070175
EST:     AGATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: AGATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|88975507|gb|CI021589.1|CI021589
EST:     AGATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: AGATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|87027081|gb|CI261528.1|CI261528
EST:     AAAGGCTTGACNC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: AAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|33660042|gb|CF291009.1|CF291009
EST:     GATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: GATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|86415979|gb|CI029990.1|CI029990
EST:     GATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: GATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|87032410|gb|CI264191.1|CI264191
EST:     AGATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: AGATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|427829|gb|D23969.1|D23969
EST:     AGATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: AGATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
EST: gi|86416814|gb|CI030825.1|CI030825
EST:     AGATGTCAAAGACATTGGAAAGGCTTGACCC                         TGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG
genomic: AGATGTCAAAGACATTGGAAAGGCTTGACCCgtgagtgcat ... ttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtgattcattataaggtgttacaggaaatgactttatctttgttgcttctagTGGTGTCACTGCTTCGCATGCATTTGTCTTGGAGACCAAAGTACAGGGCAGGTTTCAAGGTTCACCTGCGGTTATTACCTATCGTGTTCCCACAAAGGCT
                                       tctttgttgcttct  CT-rich tract
      attcattataa  TA-rich tract