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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttagtatagtataactatctaagagtgattttatttgatctgatttcagtaaaattttagtagcccatgggatttatggtatttattgtttcaatcagGCACAGAGATGACCACAGAGATAGAGAACGCAGGGGCCGAAGTCGCAGCAGAAGCAGAGAAAGGCATGGCCGTGACAGGGATAGGGATCATCGTCGTCAC

Basic information

species Oryza sativa
transcript LOC_Os08g37960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g37960.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G016296_T06 (Zea mays), 3'ss of exon 5
acttagtatagtataactatctaagagtgattttatttgatctgatttcagtaaa-attttagtagcccatgggatttatggtattt--attgtttcaatcagGCACAGAGATGACCACAGAGATAGAGAACGCAGGGGCCGAAGTCGCAGCAGAAGCAGAGAAAGGCATGGCCGTGACAGGGATAGGGATCATCGTCGTCAC------------
   || | |  |||| | || ||   |    || |     |  | ||| | | || |  | || || | | |  | |||| || | |  ||||||| ||  ||||||||||||            ||||| |  ||  ||| |||||||||||| |||||||||||||||| |||||| || || ||||   |||||||||              
---taatctcctatatcaatttagttgatccttaaccgccttcgttttgatttaatagatcagcagtctaggcaacttatagtgtgtgcattgttttaactagGCACAGAGAT------------AGAGATCATAGAAGCCAAAGTCGCAGCAGGAGCAGAGAAAGGCATGTCCGTGATAGAGACAGGGGCTATCGTCGTCGGAGCAGAAGTAGA
















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|33794171|gb|CF322976.1|CF322976
EST:     GAGGTTGAGAAATCACGGGACAGGTCAAGAAGCCGTAGCCCAAGGCGAAG                         GCACAGAGATGACCACAGAGATAGAGAACGCAGGGGCCGAAGTCGCAGCAG
genomic: GAGGTTGAGAAATCACGGGACAGGTCAAGAAGCCGTAGCCCAAGGCGAAGgtgcatacct ... tttcaatcagGCACAGAGATGACCACAGAGATAGAGAACGCAGGGGCCGAAGTCGCAGCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcagtaaaattttagtagcccatgggatttatggtatttattgtttcaatcagGCACAGAGATGACCACAGAGATAGAGAACGCAGGGGCCGAAGTCGCAGCAGAAGCAGAGAAAGGCATGGCCGTGACAGGGATAGGGATCATCGTCGTCAC
                                          ttgtttc  CT-rich tract
                            atttatggtatttatt  TA-rich tract