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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcttccctgtttccctgactgaaacaaaacatgtcttcaattgaattgcttgtgtttttttttcttctgcattgttcagtactcaactcactgttttgtgttttaccactttgcagTCTTCAGTCCTCTACTTCAGAGGTCAGAGGATATGGGACGCTATCATCAGTGATCTCCTTCCAAAAGGCCTTGCAAAAGCCCAAAAG

Basic information

species Oryza sativa
transcript LOC_Os10g40290.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40290.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G117999_T03 (Zea mays), 3'ss of exon 3
gtacgcttccctgtttccctgactgaaacaaaacatgtcttcaattgaattgcttgtgtttttttttcttctgcattgttcagtactcaactcactgttttgtgttttaccactttg-cagTCTTCAGTCCTCTACTTCAGAGGTCAGAGGATATGGGACGCTATCATCAGTGATCTCCTTCCAAAAGGCCTTGCAAAAGCCCAAAAG-------
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---------------------------gtatgcttactgttcggtgcacttgtacacatattatttgccgctctggatcggagcact-agcttaccgtttggcatttgccaatcttggcagTCCTCGGTGCTCTACTTCAGTGGCCAGAGGATATGGGACGCTATTGTCGCCGATCTGCTCAGGAAGGGACTGGCGAGAGCCGACAAGGTTCCCC

upper sequence: LOC_Os10g40290.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G117999_T01 (Zea mays), 3'ss of exon 3
gtacgcttccctgtttccctgactgaaacaaaacatgtcttcaattgaattgcttgtgtttttttttcttctgcattgttcagtactcaactcactgttttgtgttttaccactttg-cagTCTTCAGTCCTCTACTTCAGAGGTCAGAGGATATGGGACGCTATCATCAGTGATCTCCTTCCAAAAGGCCTTGCAAAAGCCCAAAAG
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---------------------------gtatgcttactgttcggtgcacttgtacacatattatttgccgctctggatcggagcact-agcttaccgtttggcatttgccaatcttggcagTCCTCGGTGCTCTACTTCAGTGGCCAGAGGATATGGGACGCTATTGTCGCCGATCTGCTCAGGAAGGGACTGGCGAGAGCCGACAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttctgcattgttcagtactcaactcactgttttgtgttttaccactttgcagTCTTCAGTCCTCTACTTCAGAGGTCAGAGGATATGGGACGCTATCATCAGTGATCTCCTTCCAAAAGGCCTTGCAAAAGCCCAAAAG
                       aactcac  putative branch site (score: 2)
 ttttacc  putative PPT
 tgtttta  TA-rich tract