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'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgttggaattactgaccttgtctcaaatcgtgtccatcctctgttccccgcttctctttccacaatgctaacaaagtggcatattctttttggtgcagGTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACTCCTTGTGCTAAAGACTTTGTACAAAAGTTGCTTGTTAAGGATCCCCGTG

Basic information

species Oryza sativa
transcript LOC_Os07g22710.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g22710.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G365035_T01 (Zea mays), 3'ss of exon 6
-catgttggaattactgaccttgt---ctcaaatcgtgtccatcctctgttccccgcttctctttccacaatgctaacaaagtggcatattctttttggtgcagGTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACTCCTTGTGCTAAAGACTTTGTACAAAAGTTGCTTGTTAAGGATCCCCGTG
  | |   ||||   |    ||||   ||||  | |||||   | | |  |     ||| |||    | | || || | | || || |||| | ||   ||||||| || ||||| ||||||||||| || |||||||| ||| |||| || ||| |  |||| ||||| ||||||||||| || || ||||||||||||||||
aaaagcatgaatatttatttttgtatgctcagctagtgtctg-cttgtagttatgacttatctgattatactg-taccgacgttgc-tatt-tcttcactgcagGTCTTAAAAAAGAAGCCAGATTTCCGCCGCAAGCCTTGGTCAAACATTACTTCGAGTGCAAAAGATTTTGTACAAAAATTACTAGTTAAGGATCCCCGTG
















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|33798127|gb|CF324924.1|CF324924
EST:     GTGGAAGACGACCTTTCTGGGACAAAACTGAAGATGGAATATTTAAAGAG                         GTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACT
genomic: GTGGAAGACGACCTTTCTGGGACAAAACTGAAGATGGAATATTTAAAGAGgtcattttgc ... tttggtgcagGTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACT
EST: gi|58602510|gb|CK013038.1|CK013038
EST:     TTTCTGGGACAAAACTGAAGATGGAATATTTAAAGAG                         GTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACT
genomic: TTTCTGGGACAAAACTGAAGATGGAATATTTAAAGAGgtcattttgc ... tttggtgcagGTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccccgcttctctttccacaatgctaacaaagtggcatattctttttggtgcagGTGTTGAAAAACAAGCCAGATTTTCGTCGCAAGCCCTGGCCAAATATCACTCCTTGTGCTAAAGACTTTGTACAAAAGTTGCTTGTTAAGGATCCCCGTG
                      tgctaac  putative branch site (score: 1)
                                      tattcttttt  putative PPT
                                     atattcttttt  TA-rich tract