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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCCAGGAATGACAGTTCTGAGCAAGCTTCTCTATGGCACACTGCATGCTGAATCTTATGATTGGATTGATGTAACTGATCCAACCGATCAATTACAGGgtgagctttgatgtttgaattcatgttgttcacttattctgccacataacagtagttgtccatatttaccatctatttgtttaatcctttcaatggatga...

Basic information

species Oryza sativa
transcript LOC_Os04g06790.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g06790.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G136250_T03 (Zea mays), 5'ss of exon 5
CACCCAGGAATGACAGTTCTGAGCAAGCTTCTCTATGGCACACTGCATGCTGAATCTTATGATTGGATTGATGTAACTGATC---CAACCGATCAATTACAGGgtgagctttgatgtttgaattcatgttgttcacttattctgccacataacagtagttgtccatatttaccatctatttgtttaatcctttcaatggatga--
   || ||||||||||| || ||||||||||| ||||| | |||||||||||| |||||||| ||| |||||||| ||||||   | |  |||||||| ||  ||||| | |||  ||||||||  |    |   | |    |     || |  ||| || |   | ||  |     || |  |||||       |    ||   
---CCTGGAATGACAGTACTTAGCAAGCTTCTTTATGGAAGACTGCATGCTGAGTCTTATGACTGGGTTGATGTACCTGATCATCCTATTGATCAATTGCAACgtgagttctgacatttgaattggttccttctgcatgccattgtttattatggta-ttatttgt-ttgtcagagaatatacttaatggaaatgaaacttgcag

upper sequence: LOC_Os04g06790.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G162175_T01 (Zea mays), 5'ss of exon 4
CACCCAGGAATGACAGTTCTGAGCAAGCTTCTCTATGGCACACTGCATGCTGAATCTTATGATTGGATTGATGTAACTGATC---CAACCGATCAATTACAGGgtgagctttgatgtttgaattcatgttgttcacttattctgccacataacagtagttgtccatatttaccatctatttgttt---aatcctttcaatggatga-------
   || |||||||| || || ||||||||||| |||||    |||||||||||||||||||| ||| ||||  || ||||||   |||  |||||||||||  ||||| | |||  ||| |||     | ||||  |  ||||   ||||  || |  || |  ||    |  || | |||||     |||    | |||| |          
---CCTGGAATGACTGTACTTAGCAAGCTTCTTTATGGACGTCTGCATGCTGAATCTTATGACTGGGTTGACATACCTGATCATCCAATTGATCAATTACAAAgtgagttctgacatttaaat-----tggttccttccttct---acatgccattgtttatt-atggc-attatttgtttgtcagagaatatacttaatgaaaatgtacttt

upper sequence: LOC_Os04g06790.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv10s0003g01390.t01 (Vitis vinifera), 5'ss of exon 5
CACCCAGGAATGACAGTTCTGAGCAAGCTTCTCTATGGCACACTGCATGCTGAATCTTATGATTGGATTGATGTAACTGATCCAACCGATCAATTACAGGgtgagctttgatgtttgaattcatgttgttcacttattctgccacataacagtagttgt---ccatatttaccatctatttgtttaatcctttcaatggatga
|| || |||||||||||  ||||||||||||| ||||| ||||| ||||   |||| ||||||||| ||||| || |||   |  | |||| ||  || |||| | | | ||  |  |||   | || || |    |     ||  ||| | || |      ||| |  | |   | |       |||||| |   |      
CATCCTGGAATGACAGTGTTGAGCAAGCTTCTGTATGGTACACTACATGTGAAATCATATGATTGGCTTGATTTACCTGGGACTGCTGATCTATCTCAAGgtgtggtcttatactgcaatagtttttttttataggtaaatgcaagtaatattaataaagcaccaaaaatgcacaccaaagtcaaaatcctgttcttttc---

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|58690146|gb|CK078833.1|CK078833
EST:     TGAATCTTATGATTGGATTGATGTAACTGATCCAACCGATCAATTACAGG                         AACTTTCAGTGAGACCAGCAAGGCTTGTCAGAGACCGTGAAATGTCTGCTC
genomic: TGAATCTTATGATTGGATTGATGTAACTGATCCAACCGATCAATTACAGGgtgagctttg ... taccctgcagAACTTTCAGTGAGACCAGCAAGGCTTGTCAGAGACCGTGAAATGTCTGCTC