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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctcttcttattccctttcccctccactgtccatcctttataagtgttgataatcattttactatctttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT

Basic information

species Oryza sativa
transcript LOC_Os08g10600.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g10600.3 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 11
gtatgtctcttcttattccctttcccctccactgtccatcctttataagtgttgataatcattttactatctttctgtca--gGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT
||||   || |     | ||  ||||||||    |  || || |||| |  || | |||  | | | |   ||| |||||  | | ||| ||||||||||||||||||||||||| || ||||| ||||| |||||||||||||| |||||
gtataattcctacacctgcc--tcccctcc----tatatactatataggcattaacaattgtgt-atttcttttatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT
















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|163919868|gb|EG711498.1|EG711498
EST:     CTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAAT                         GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
genomic: CTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAATgtatgtctct ... tttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
EST: gi|29685401|gb|CB681676.1|CB681676
EST:     CTTCGTTATTGTTGGAGCAAT                         GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
genomic: CTTCGTTATTGTTGGAGCAATgtatgtctct ... tttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
EST: gi|29674853|gb|CB671128.1|CB671128
EST:     GTTGGAGCAAT                         GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
genomic: GTTGGAGCAATgtatgtctct ... tttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
EST: gi|29616665|gb|CB621677.1|CB621677
EST:     CTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAAT                         GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
genomic: CTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAATgtatgtctct ... tttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
EST: gi|3767528|gb|AU031622.1|AU031622
EST:     CTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAAT                         GTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT
genomic: CTACTGAAATAAATCAAGGCACAGGGCGCCTTCGTTATTGTTGGAGCAATgtatgtctct ... tttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccactgtccatcctttataagtgttgataatcattttactatctttctgtcagGTATGCCTGCATATGTTTACTTTGGATTTTCTTAATCAAGTAACAAATAGTCTTGAAAAGGACAGCAT
                       tgttgat  putative branch site (score: 4)
                                   ttttactatctttct  putative PPT
                            ataatcattttactat  TA-rich tract