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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgtttttccacgcatgtacactaataacacgtagtactacttatatattgacagatttcttcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAACAGCATGCATTGCTTGGTAATCTGAATCAAGACTTGTCCCAGAAATCAG

Basic information

species Oryza sativa
transcript LOC_Os01g60660.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g60660.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G166345_T02 (Zea mays), 3'ss of exon 1
------------------------------------------------------------------------------------------------------------------------------gtaactgtttttccacgcatgt-acactaataacacgtagtactacttatatattgacagatttcttcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAACAGCATGCATTGCTTGGTAATCTGAATCAAGACTTGTCCCAGAAATCAG
                                                                                                                              |     | ||  |  ||| | |   |    | |  |    |   ||  || | || |    |||||||  | ||||||  || | ||| |  | |||| |||| |||||   | ||    |||  |||||||||||||||||| |||||| ||||| || ||||||||||| || |
gtgcgtgcctccatctctcctcccgcctccggtggatcgtcgacggcgctcagccccggcggcagagccgcgtgccgcggcctgcgggcagcgggagccagccagcagctgctgctcccgcgcgaagcgtgcgcttagcgccgccttttggaaccctgatgcaatatgtaacccatgtctttat---tttcttcctttatagGTGATGGACTGGATAAAGTTTTGCAGCGATTTTACCGCAAGTGATGGGAAACAGCATGCATTGCTTGATAATCTTAATCAGGAATTGTCCCAGAAGTCTG
















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|58661696|gb|CK050376.1|CK050376
EST:     GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
genomic: GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
EST: gi|29683642|gb|CB679917.1|CB679917
EST:     GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
genomic: GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
EST: gi|29642107|gb|CB647114.1|CB647114
EST:     GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
genomic: GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
EST: gi|88266358|gb|CI377260.1|CI377260
EST:     TCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCACCAATTTTGTTGGAAAATGTGGAGAA
genomic: TCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
EST: gi|25800390|gb|CA756351.1|CA756351
EST:     GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
genomic: GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
EST: gi|29642063|gb|CB647070.1|CB647070
EST:     GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
genomic: GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
EST: gi|29672821|gb|CB669096.1|CB669096
EST:     GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAG                         GTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA
genomic: GTGATATTGCCACCCTGTTCTCACATATTGTGAAATCGAGTGAAGATGAGgtaactgttt ... tcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacactaataacacgtagtactacttatatattgacagatttcttcactgatagGTACTGAAATGGGTTGAATTTTCCAGCAATTTTGTTGGAAAATGTGGAGAACAGCATGCATTGCTTGGTAATCTGAATCAAGACTTGTCCCAGAAATCAG
                                        tttcttcact  CT-rich tract
                   tactacttatatatt  TA-rich tract