Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatttataaaaatatcttttgtccatccaaaagacaattcaatagattctatgctttgcatctgcaggttacactgatagtttgagtaacattttgtagGGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCATTCATGTTATCTTGCACAATTACCCTCCACCCTTCCCCAAACGTGTACTT

Basic information

species Oryza sativa
transcript LOC_Os05g39110.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g39110.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G173874_T01 (Zea mays), 3'ss of exon 2
taatttataaaaatatcttttgtccatccaaaagacaattcaatagattctatgcttt-gcatctgcaggttacactgatagtttgagtaacattttgtagGGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCATTCATGTTATCTTGCACAATTACCCTCCACCCTTCCCCAAACGTGTACTT
||  |  |  |  | |  | ||||          | || |  ||  ||| || | |   |  | |  | ||||  || | |  ||   |   |  ||||||||| |||||| |||| |||||||||||||||||||| |||||||| |||||||||||||||||||| ||||| ||||| || |||||||| |||||||| 
tacgtcttgcatttttgatatgtctgatttttttagaaatatatttattttaggatagagggtgtatatgttattcttaaaactttt-ttttacattgtagGGGAACTGCAGTGACCATGAAGCGCATGCTGGAAACCTCATTTCCTGGCATTCATGTTATCTTGCATAATTATCCTCCTCCATTCCCCAAGCGTGTACTC
















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|27578345|gb|CB001040.1|CB001040
EST:     GGATATGGCACCACCGGCGAGCTGCAATTCTGCGCCTCCTGCTCGTACAA                         GGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCAT
genomic: GGATATGGCACCACCGTCGAGCTGCAATTCTGCGCCTCCTGCTCGTACAAgtgagtttcg ... cattttgtagGGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCAT
EST: gi|163921094|gb|EG714093.1|EG714093
EST:     GGATATGGCACCACCGTCGAGCTGCAATTCTGCGCCTCCTGCTCGTACAA                         GGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCAT
genomic: GGATATGGCACCACCGTCGAGCTGCAATTCTGCGCCTCCTGCTCGTACAAgtgagtttcg ... cattttgtagGGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCAT
EST: gi|163926652|gb|EG713668.1|EG713668
EST:     GGATATGGCACCACCGTCGAGCTGCAATTCTGCGCCTCCTGCTCGTACAA                         GGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCAT
genomic: GGATATGGCACCACCGTCGAGCTGCAATTCTGCGCCTCCTGCTCGTACAAgtgagtttcg ... cattttgtagGGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCAT
EST: gi|3762102|gb|C99350.1|C99350
EST:     ATGGCACCCNCCGTCGGGGCTGGCAATTCTGCGCCTCCTGGCTCGTACAA                         GGGGACTGCAATGACTATGGAAGCGCATGCTGGAAACATCATTTCCCAGGC
genomic: ATGGCA-CCACCGTC-GAGCT-GCAATTCTGCGCCTCCT-GCTCGTACAAgtgagtttcg ... cattttgtagGGGGACTGCAATGACTAT-GAAGCGCATGCTGGAAACATCATTT-CCAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattctatgctttgcatctgcaggttacactgatagtttgagtaacattttgtagGGGGACTGCAATGACTATGAAGCGCATGCTGGAAACATCATTTCCAGGCATTCATGTTATCTTGCACAATTACCCTCCACCCTTCCCCAAACGTGTACTT
                                       gagtaac  putative branch site (score: 2)
                                          taacatttt  TA-rich tract