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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcagatgaatcaaataagaaacttgctaaaatttgtttttgctatctagttgctaaatcaaaaccataatcttttgtcaatttgtgcagTGCTGCACTTGCACACGCCATTCTGCAGGAGAAACTACACACCTTTGGCATACTTGGTTGTGTTCTTTGTGTAGTTGGATCTATCACAATTGTACTCCAT

Basic information

species Oryza sativa
transcript LOC_Os11g09140.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g09140.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G129268_T01 (Zea mays), 3'ss of exon 3
gtaatttcagatgaatcaaataagaaacttgctaaaatttgtttttgctatctagttgctaaatcaaaaccataatctttt--gtcaatttgtgcagTGCTGCACTTGCACACGCCATTCTGCAGGAGAAACTACACACCTTTGGCATACTTGGTTGTGTTCTTTGTGTAGTTGGATCTATCACAATTGTACTCCAT
          ||   |  | |   ||||||| ||  |||   |  | ||  ||||||  ||||   |||  ||||        ||   ||| ||||| |||||||||||||| |||||||| ||||||||||| ||||| ||||| ||||||||||||||||| ||||| |||||||||||||||||||| ||||||
--------gtatatgtttatttc-aaacttgatagcattg--tgctccttgctagttattaaactgaaatgataactaaaaaggtttgtttctgcagCGCTGCACTTGCACATGCCATTCTACAGGAGAAACTGCACACATTTGGTATACTTGGTTGTGTTCTCTGTGTTGTTGGATCTATCACAATTGTGCTCCAT

upper sequence: LOC_Os11g09140.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 3
gtaatttcagatgaatcaaataagaaacttgctaaaatt-tgtttttgctatctagttgctaaatcaaaaccataatcttttgtcaatttgtgcagTGCTGCACTTGCACACGCCATTCTGCAGGAGAAACTACACACCTTTGGCATACTTGGTTGTGTTCTTTGTGTAGTTGGATCTATCACAATTGTACTCCAT
        | |||  |   ||   ||||||  ||  ||| || |||  ||| ||||||  |||||  |||  |||||  ||||| ||||| ||||| |||||||| ||||| |||||||| ||||||||||| ||||| ||||| ||||| ||||||||||| ||||| || ||||| ||||||||||| ||||||
------gtacatgttt---atgtcaaacttaatagcattgtgctttacctagctagttattaaattgaaatgataattatttgtaaatttctgcagCGCTGCACTCGCACATGCCATTCTACAGGAGAAACTGCACACATTTGGTATACTCGGTTGTGTTCTCTGTGTTGTCGGATCCATCACAATTGTGCTCCAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttttgctatctagttgctaaatcaaaaccataatcttttgtcaatttgtgcagTGCTGCACTTGCACACGCCATTCTGCAGGAGAAACTACACACCTTTGGCATACTTGGTTGTGTTCTTTGTGTAGTTGGATCTATCACAATTGTACTCCAT
                tgctaaa  putative branch site (score: 2)
                   taaatcaaaa  TA-rich tract