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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGAGAAGATCTATTTCCCTTATCTACTGATTAGCAAGAAGAGATATGCTGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAGgtattttcttttgtcttgtcttagatatcatcttaccttcttgctttaacatgattctaactttgcttatag

Basic information

species Oryza sativa
transcript LOC_Os11g08330.1
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g08330.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GRMZM2G115245_T01 (Zea mays), 5'ss of exon 6
TTTGAGAAGATCTATTTCCCTTATCTACTGATTAGCAAGAAGAGATATGCTGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAGgtattt-tcttttgtcttgtcttagatatcatcttaccttcttgctttaacatg-attctaactttgcttatag--------------------------------
||||||||| ||||||| ||||| || || || |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||  | |||||||||  | |||||| | |   |  | | |||   ||  | ||  ||  |  || |  |  |  ||  ||||                                  
TTTGAGAAGGTCTATTTTCCTTACCTTCTAATCAGCAAGAAGAGATATGCTGGTTTGTACTGGACGAATCCTGAGAAATTTGACAAAATGGATGCAAAAGgtattccttttttgtttagctgtgtaaagcataa-actattttcattggatgtggacacagatgttagttatccttcctttcaaatgtcttctatcttgcgtgcag

upper sequence: LOC_Os11g08330.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA06G16110.1 (Glycine max), 5'ss of exon 22
TTTGAGAAGATCTATTTCCCTTATCTACTGATTAGCAAGAAGAGATATGCTGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAGgtattttcttttgtcttgtcttagatatcatcttaccttcttgctttaacatgattctaactttgcttatag---
||||||||| | || |  || ||||| |||||||||||||||||||||||||||||||  |||||||| || || || ||||||||||||||||| |||||||    | ||  ||||  | |   | |    ||       ||| |     | |  |||| | ||| |  ||   
TTTGAGAAGGTTTACTATCCATATCTCCTGATTAGCAAGAAGAGATATGCTGGTTTGTTTTGGACAAAACCAGACAACTTTGACAAAATGGACACTAAAGgtaaa--cattactctttaccttcttgttgctttgttgaagtgcctc----ttaaactaaatatgcattgagcag

upper sequence: LOC_Os11g08330.1 (Oryza sativa), 5'ss of exon 22
lower sequence: GLYMA04G38800.2 (Glycine max), 5'ss of exon 6
TTTGAGAAGATCTATTTCCCTTATCTACTGATTAGCAAGAAGAGATATGCTGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAGgtattttcttttgtcttgtcttagatatcatcttaccttcttgctttaacatgattctaactttgcttatag
||||||||| | || |  || |||||  ||||||||||||||||||||||||| ||||  |||||||| || || || ||||||||||||||||| |||||||    | ||  ||||  | | | |    | ||    |    ||  |||   |||   | |  ||      
TTTGAGAAGGTTTACTATCCATATCTCTTGATTAGCAAGAAGAGATATGCTGGATTGTTTTGGACAAAACCAGACAACTTTGACAAAATGGACACTAAAGgtaaa--cattactctttaccttgttgctttgttgaagtgcctctgaaactaaatttgcattgagcag----

upper sequence: LOC_Os11g08330.1 (Oryza sativa), 5'ss of exon 22
lower sequence: AT5G63960.2 (Arabidopsis thaliana), 5'ss of exon 22
TTTGAGAAGATCTATTTCCCTTATCTACTGATTAGCAAGAAGAGATATGCTGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAGgtattttcttttg-tcttgtcttagatatcatcttaccttcttgctttaacatgattctaactttgctta-tag
||||| ||| |||||||||| ||||| || |||| ||||||||| ||||||||||||   |||||||||||| |  | ||||||||||||||||| |||||||  |  |  || | ||        | || | ||   ||| ||  | ||  | | | | ||     ||   ||
TTTGAAAAGGTCTATTTCCCATATCTTCTCATTAACAAGAAGAGGTATGCTGGTTTGCTATGGACAAATCCTCAACAGTTTGACAAAATGGACACCAAAGgtaaatcttcgtgattttacagcctctctcttattcatttcctgactaaatttcaatatcaccgactttggcag

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|66922754|gb|CX109602.1|CX109602
EST:     TGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAG                         GTATTGAAACAGTGAGAAGGGACAACTGTTTATTAGTAAAGAACCTGGTTA
genomic: TGGTTTGTACTGGACAAATCCTGAGAAATTTGACAAAATGGACACGAAAGgtattttctt ... ttgcttatagGTATTGAAACAGTGAGAAGGGACAACTGTTTATTAGTAAAGAACCTGGTTA