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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCTgtaagtttctacagaggctatgctattagttaatgaaagcatattaggaaatgtaatatttatactcatatcttcctgacttag

Basic information

species Oryza sativa
transcript LOC_Os02g42520.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g42520.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA09G29070.1 (Glycine max), 5'ss of exon 5
GGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCTgtaagtttctacagaggctatgctatta-gttaatgaaagcatattaggaaatg--taatatttatactcatatcttc-ctgacttag-----------
| ||||||||||| ||||| ||||||||| | || || || || | |||||| || ||||| ||||||||||| || || |||||||||    |||  | ||| || |||   |  ||    || | | |  | |||  | ||| |  |   || ||  |   | ||||             
GTCTTGGTGCAGCATGGAATGTTGCTGATGTGTCAAAAGGATCAACTGTGGTGATTTTTGGTCTTGGAACTGTTGGCCTATCTgtaagt----acaaggactaagcaattgtatctatcttggcttctcaacagatgagtgataatattttccaaattgtaattaactttcctttaaattag

upper sequence: LOC_Os02g42520.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G24760.1 (Arabidopsis thaliana), 5'ss of exon 5
GGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCTgtaagtttc--tacagaggct---atgctattagttaatgaaagcatattaggaaatgtaatatttatactcatatcttcctgacttag
| ||||||||||| ||||| ||||||||| |    || || || ||||| || |||||||| ||||||||||| || |||||||||||| |   |||||| | |   ||| |  |  || |    ||  |  |  |  ||  |     |||    |                
GTCTTGGTGCAGCATGGAATGTTGCTGATGTACAAAAAGGTTCAAGTGTTGTGATATTTGGTCTTGGAACTGTCGGTCTTTCTgtaagtatagatacagaagttttgatgattctgttttaatggagtctgatgtgggattaatctcctatgagtag---------------
















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|27576860|gb|CA999554.1|CA999554
EST:     CGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCT                         GTTGCTCAAGGTGCTAAGCTGCGCGGGGCTTCTATAATTATCGGTGTTGAT
genomic: CGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCTgtaagtttct ... cctgacttagGTTGCTCAAGGTGCTAAGCTGCGCGGGGCTTCTATAATTATCGGTGTTGAT
EST: gi|27577599|gb|CB000294.1|CB000294
EST:     CGAAGGGGCCTAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCT                         GTTGCTCAAGGTGCTAAGCTGCGCGGGGCTTCTATAATTATCGGTGTTGAT
genomic: CGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCTgtaagtttct ... cctgacttagGTTGCTCAAGGTGCTAAGCTGCGCGGGGCTTCTATAATTATCGGTGTTGAT
EST: gi|29617893|gb|CB622905.1|CB622905
EST:     CGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTANGGCTTTCT                         GTTGCTCAAGGTGCTAAGCTGCGCGGGGCTTCTATAATTAT
genomic: CGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCTgtaagtttct ... cctgacttagGTTGCTCAAGGTGCTAAGCTGCGCGGGGCTTCTATAATTAT