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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattccttgatttcactcttgttgcaatagccattcatttctatacctaatcaaaaaatacgtaaggtttccagtagttattttcgtctgtttct...

Basic information

species Oryza sativa
transcript LOC_Os05g36070.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA14G21190.1 (Glycine max), 5'ss of exon 3
AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattcct-tgatttcactcttgttgcaatagccattcatttctatacctaat-caaaaaatacgtaaggtttccagtagttattttcgtctgtttct
   ||||||||| | ||||| ||||||||||| |||||||||||||| |||||||| ||||| || ||||||||||||||||||||||| |  |||    |||  | | | |  ||    || |  ||| | |  |     |||    || |  |    | || | |     ||   |    |||||  
GCTGGACTCTTTGTTTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTCAGCGTTGCAAAATCATTTGATGCTCCAATAAAGgttaacattttaatgaaataattttatttttcctatc--ttcgtgtgaagtttaaatgtttaatactcccttgattgcgaaactgtagactttcttgtttaa

upper sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA06G08620.3 (Glycine max), 5'ss of exon 8
AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgt-aagtattcctt------------gatttcactcttgttgcaatagccattcatttctatacctaatcaaaaaatacgtaaggtt--tccagtagttattttcgtctgtttct-------------------
   || || ||| | ||||| ||||||||||| |||||||||||||| ||||| || ||||| || ||||||||||||||||||||||| |||| ||                ||||||  | |   |      |   || | || ||||  || |   | |  |  ||||     |  | ||  | | ||| |    || |                   
GCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAGgttaagttttttgctaatgaaatggagatttctgtttgtctttgtgtgaattttaattgtatatttactatgatatcagataagaaaaatgtaataaatctattcctaatattgtcattcaaattattttgcag

upper sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA04G08510.1 (Glycine max), 5'ss of exon 8
AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattcctt-------------gatttc-----actcttgt------tgcaatagc-cattcatttctatacctaatcaaaaaatacgtaaggtttccagtagttattttcgtctgtttct--------
   || || ||| | ||||| ||||||||||| |||||||| ||||| |||||||| ||||| || ||||||||||||||||||||||| ||| ||  |              ||||||         ||||      |  ||| |   | | | |   ||| |  || |||||||     |  | |        |||| || |     |          
GCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACCCCAGTGATGGTCAGCGTTGCAAAATCATTTGATGCTCCAATAAAGgttagtttttttgctaatgaaatggagatttctgtttgtctttgtgtgaattttaattgtgtacttactatgatatcagataaaaaaatgtaataaatctattcctaatattgtcattcaaattattttgcag

upper sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 5'ss of exon 7
AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagta----ttccttgatttcactcttgttgcaatagccattcatttctatacctaatcaaaaaatacgtaaggtttccagtagttattttcgtctgtttct
   ||||| |||||||||||||| |||||||| ||||| |||||||||||||| ||||||||||| || || ||||||||||| ||||| ||||    | |||  |    || |    | | | |   ||||   | | | | || ||||    |  ||||  |      ||  |||||   || |     
GCAGGACTATTTTTCTATGATATCTTCTGGGTTTTCTTTACTCCAGTTATGGTTAGTGTTGCCAAATCCTTCGATGCTCCAATTAAGgttagtaaaaatgcctcaaaagtacacaccataccaaattgattctgatttgttcttagtcaatttttcagtaatctcattgttacatatttctttcag-----

upper sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 5'ss of exon 8
AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattcc---------------ttgatttc----actcttgttgcaatagccattcatttc-------tatacctaatcaaaaaat-------acgtaaggtttccagtagttattttcgtctgtttct--------
   ||||| ||| | |||||||||||||||||||||||||||||||| |||||||||||||| ||||| || |||||||| || ||||| |||  |||               || ||       | ||| |||       | ||| |||||       | ||  ||||||  || |       || | |   ||| |   || ||    ||    ||||        
GCAGGACTTTTTGTTTATGATATTTTCTGGGTCTTCTTCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaattctttttgcag

upper sequence: LOC_Os05g36070.2 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ18240 (Selaginella moellendorffii), 5'ss of exon 7
AGCGGACTCTTTTTCTATGATATTTTCTGGGTCTTCTTCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattccttgatttcactcttgttgcaatagccattcatttctatacctaatcaaaaaatacgtaaggtttccagtagttattttcgtctgtttct
  ||| || ||  | ||||| || |||||||| ||||||||||| || |||||||  ||||| ||||| ||||||||||| || |||||             || | ||||   ||||||   ||| | | |||| | |    ||   |                                      
GCCGGGCTATTCGTATATGACATCTTCTGGGTATTCTTCACTCCTGTGATGGTCACCGTTGCGAAGTCCTTTGATGCTCCCATCAAGgt-------------ttgctctctcagtgcaatg--catccttctcta-atccctccatgcag-------------------------------------

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|87005300|gb|CI285522.1|CI285522
EST:     TCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAG                         CTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTG
genomic: TCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattc ... ttttgcacagCTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTG
EST: gi|8859158|gb|AU096476.1|AU096476
EST:     CCAAGTCATTTGATGCTCCAATAAAG                         -TTCTATTTCCTACAGGTGATGCTGCACG-CCGTTCTCTATGCTTGGCCTT
genomic: CCAAGTCATTTGATGCTCCAATAAAGgtaagtattc ... ttttgcacagCTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTGGCCTT
EST: gi|29628338|gb|CB633349.1|CB633349
EST:     TCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAG                         CTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattc ... ttttgcacagCTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTGGCCTT
EST: gi|29628337|gb|CB633348.1|CB633348
EST:     TCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAG                         CTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTTGCCAAGTCATTTGATGCTCCAATAAAGgtaagtattc ... ttttgcacagCTTCTATTTCCTACAGGTGATGCTGCACGCCCGTTCTCTATGCTTGGCCTT