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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagattgctaatggacaattccttgatgccttagtttataattttttgccctgacatgcataactggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAGAGACGAAAGTCTGACCCTAGCATG

Basic information

species Oryza sativa
transcript LOC_Os10g26140.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g26140.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G444692_T03 (Zea mays), 3'ss of exon 3
gtaagagattgctaatggacaattccttg------atgcct------tagtttataattttttgccctgacatgcataactggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAGAGACGAAAGTCTGACCCTAGCATG
||||||  |||||||||| |||||  ||       |  |||      | ||  ||   ||||||| || |||||| || || |||||  |||||||||| |||||||  |||||||||||||  ||| ||||||||||||||||||||||||||||||| ||||||
gtaagaagttgctaatggtcaattttttttgtgtcacacctctttcattgtgaatgcatttttgctctaacatgcttatcttgaattacagGCTATTGCTGCTAGTAGTTCTGATGCTCCTTCAATTTTGGAATTCCTTCAGAGACGAAAGTCTGACCCAAGCATG
















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|58592579|gb|CF990887.1|CF990887
EST:     TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAG                         GCTATTGCCGCTAGTACATCTGATGCTCCTTCGATTCTGGAATTCCTTCAG
genomic: TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAGgtaagagatt ... ggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
EST: gi|29669542|gb|CB665817.1|CB665817
EST:     TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAG                         GCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
genomic: TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAGgtaagagatt ... ggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
EST: gi|29613813|gb|CB618826.1|CB618826
EST:     TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAG                         GCTATTGCCGCTAGTACATCTGATGCTCCTTCGATTCTGGAATTCCTTCAG
genomic: TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAGgtaagagatt ... ggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
EST: gi|88341692|gb|CI641444.1|CI641444
EST:     TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAG                         GCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
genomic: TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAGgtaagagatt ... ggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
EST: gi|33676205|gb|CF304444.1|CF304444
EST:     TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAG                         GCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG
genomic: TCTGTGATGTTGAGAACGGGCTCTTATGGAAACTTCATTTAGACCTAGAGgtaagagatt ... ggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgatgccttagtttataattttttgccctgacatgcataactggaattttagGCTATTGCCGCTAGTACATCTGATGCTCCTTTGATTCTGGAATTCCTTCAGAGACGAAAGTCTGACCCTAGCATG
                                     gcataac  putative branch site (score: 3)
          ttagtttataattttt  TA-rich tract