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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttattgggtgtcctactaaattggatctgtccctttttcatcatttgatcccttgaatactattatgtttttaatgttaaatgttctatttgtctgcagGCTCGTCCATTGTTCAAAGACCAAAGGAAATTTCCAAAGATGGCGGACCCCTCATTACACGGCCACTTCCCGAAAAGGGGTCTGTTCCAGGCTTTGGCTA

Basic information

species Oryza sativa
transcript LOC_Os01g15470.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g15470.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G074381_T01 (Zea mays), 3'ss of exon 4
-----cttattgggtgtcctactaaattggatctgtccctttttcatcatttgatcccttgaatactattatgtttttaatgttaaatgttctatttgtctgcagGCTCGTCCATTGTTCAAAGACCAAAGGAAATTTCCAAAGATGGCGGACCCCTCATTACACGGCCACTTCCCGAAAAGGGGTCTGTTCCAGGCTTTGGCTA
      |||||     | |||||| |    |  ||   | || || |       | | ||  ||    | |  |    |       ||  |  || ||| | |||||||||||||||||||||||||||| ||| ||||  |||||||| || || || ||    |||| |||||| || |||||| | ||||||||  ||||||
tcaaaattattaccactgctactaga----acgtgaatcattatcgttgccatttacgttatatttcgtgaactaaacagcaccttatactg-atctgtgtacagGCTCGTCCATTGTTCAAAGACCAAAAGAAGTTTCGCAAGATGGCTGATCCTTCGTTGTGTGGCCGCTTCCCAAAGAGGGGTTTATTCCAGGCACTGGCTA
















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|25800162|gb|CA756123.1|CA756123
EST:     GAGCGCTTGACAGCAATCGGCCACCTGATGAACAAGACTTGGTTGCATGG                         GCTCGTCCATTGGTCAA-GACCAA-GGAAATTTCCAAA
genomic: GAGCGCTTGACAGCAATCGGCCACCTGATGAACAAGACTTGGTTGCATGGgtatgtttct ... ttgtctgcagGCTCGTCCATTGTTCAAAGACCAAAGGAAATTTCCAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatcccttgaatactattatgtttttaatgttaaatgttctatttgtctgcagGCTCGTCCATTGTTCAAAGACCAAAGGAAATTTCCAAAGATGGCGGACCCCTCATTACACGGCCACTTCCCGAAAAGGGGTCTGTTCCAGGCTTTGGCTA
                        ttttaat  putative branch site (score: 3)
                                       ttctattt  putative PPT
           aatactattatgtttt  TA-rich tract