Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttcatgaaaaagatcatgcaccttttctttatacttattttacttcaatctatctgacctgttatgtaccttcttcatcaaagGTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTG

Basic information

species Oryza sativa
transcript LOC_Os01g56230.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56230.5 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM5G825226_T03 (Zea mays), 3'ss of exon 6
gtatgcttcatgaaaaagatcatgcaccttttctttatacttattttacttcaatctatctgacctgttatgtaccttcttcatcaaagGTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTG
|||||  | ||||||   || ||||||  ||| |||||  |  | ||   | |||  |||||||||||| |||        |||||| |||| |||||||| | |||| |||||| ||| || ||||||||||||||||||||||| |||||| |||||||||||
gtatg--tgatgaaacgaat-atgcactgtttttttatcatactctttacttaatgcatctgacctgttctgt--------catcaa-gGTTCCTTGATACCGCTGGACTGAAAAAATCCAAGGCCTATCTTGTCAATGGTGTTACGATGTTTATTGCATGGCTG
















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|29660431|gb|CB656706.1|CB656706
EST:     TACATGGTTCTCATCTCTGAAACAACCACACCTGGGATCAACCTCCGATG                         GTTTCTTGATACTGT
genomic: TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATGgtatgcttca ... ttcatcaaagGTTTCTTGATACTGT
EST: gi|300215972|gb|HO088598.1|HO088598
EST:     TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATG                         GTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGG
genomic: TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATGgtatgcttca ... ttcatcaaagGTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGG
EST: gi|24208073|gb|AU225100.1|AU225100
EST:     TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATG                         GTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGG
genomic: TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATGgtatgcttca ... ttcatcaaagGTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGG
EST: gi|29660432|gb|CB656707.1|CB656707
EST:     TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATG                         GTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGG
genomic: TACATGGTTCTCATCTCTGAAACAACCACACCTGGAATCAACCTCCGATGgtatgcttca ... ttcatcaaagGTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatacttattttacttcaatctatctgacctgttatgtaccttcttcatcaaagGTTTCTTGATACTGTTGGAATGAAAAGATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTG
                       atctgac  putative branch site (score: 3)
                                        ccttcttcatc  putative PPT
      ttattttacttcaat  TA-rich tract