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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgttggtcatgtcataactttttcccgtgtcctaactctaaatttcttatgatgtcctgctgttgacacattaattcgtag

Basic information

species Oryza sativa
transcript LOC_Os01g67520.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g67520.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G359397_T03 (Zea mays), 5'ss of exon 5
ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgttggtc--------------atgtcata-actttttcccgtgtcctaactctaaatttcttatgatgtcctgctgttgacacattaattcgtag--------------
| | ||||||||||||||||| ||||||| |  ||| ||||||||||||||||| ||||| ||||| || || ||||||||||| || || |||||||||||| ||               |||||||| |||| |    |   | |  |  |  |   ||     | |  |||  |   || | ||| || ||               
AATAGCCATGTATGTTGCAAGAGAAGCAAGGACTCCCTTCTTCAGAGTTGGTTATAACAGCCTGGGCGGCTTTGCAACTATCAACCACCTTCACTTCCAGgttagtatttagaatgtctcgatgtcatatacttctggttgcagcatggcaattgacaactgtctgtatattgcaatcctcaaagtaagtcatatatttcgttcactag

upper sequence: LOC_Os01g67520.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA14G02500.1 (Glycine max), 5'ss of exon 5
ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgt--tgg---tcatgtcataactttt------------------tcccgtgtcctaactctaaatttcttatgatgtcctgctg-ttgacacattaattcgtag----
 |||||  |  |  | |||   |||||  |  ||||||  ||  || | |||||||||||| |||||| ||| ||||| || || ||||| |||||||||||  |||     |  | ||| |  ||                  | ||||    ||| |||| |  ||| ||       || || ||    ||| |||   ||     
CCTTGCACTTCACATGGCAGTGGAAGCTGATAATCCATATTTTCGATTGGGTTACAACAGTTTGGGTGCTTTTGCAACCATTAACCATCTTCACTTCCAGgtactggatgctaaattataccacttaatagttcatgttgatgattccgttgtttaattctacaaatctgatcgcaatttggtgattttggcatgaatatatatgcag

upper sequence: LOC_Os01g67520.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgt--tggtcatgtcataacttt-ttcccgtgtcctaactctaaatttcttatgatgtcctgctgttgacacattaattcgtag---------
 |||||  |  |  | |||   |||||  |  |||| |  ||  || | |||||||||||  |||||| ||| ||||||||||| ||||| |||||||||||  |||  |    || |      |     ||| |     | | |   || |    | || |   |   |    |||| |  |         
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggatactgaattataccactaataggtcatgttgatgattccgttgtttaattctacaaatctgattgcaatttggtgattttgcag

upper sequence: LOC_Os01g67520.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgt-----------tggtcatgtcataactttttcccgtgtcctaactctaaat--ttcttatgat-gtcctgctgttgac-acattaattcgtag
 |||||  |  |  | ||   ||| ||     |||||| ||||||| | |||||||||||  |||||| ||| || |||||||||||||||||||| |||||           || ||    |||||| ||||| |   | || |    | ||  || || |||| ||  || || |||     ||       ||
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatccaagcataaccttttcacccttgctcatctaagatgtttgttctgattgttttggtggtgattgtttttggaaacag

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|86494770|gb|CI137403.1|CI137403
EST:     AACTATCAATCATCTCCACTTCCAG                         GCGTACTATCTGAAAGTGCAATATCCAGTCGAGAAGGCACTGACGGAGAAG
genomic: AACTATCAATCATCTCCACTTCCAGgttggtcatg ... taattcgtagGCGTACTATCTGAAAGTGCAATATCCAGTCGAGAAGGCACTGACGGAGAAG