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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacctagatttatcccattcattgctgttgcctcgtgttcctcatcatttgtgtttatgtattaaaagtaataacatcattaacag

Basic information

species Oryza sativa
transcript LOC_Os07g07560.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 6
GTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacctagatttatcccattcattgctgttgcctcgtgttcctcatcatttgtgtttatgtattaaaagtaataaca-tcattaacag
|| |||||||||||||||||||||||||||||||||||||||||  | |||||| |||||| | ||   |  || |  || | || | |   ||  |||  |||||  | |  | || |  | |||| |    |||| ||   |||||
GTAATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCGATGGGGCAGGCgtaagtatct---tccattctttttaatggtat---cttttgtcactcat-gtatcagcttctagactaaacgagtcaacaatctcaaacag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G164265_T03 (Zea mays), 5'ss of exon 6
GTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacctagatttatcccattcattgctgttgcctcgtgttcctcatcatttgtgtttatgtattaaaagtaataac-atcattaacag
|| ||||||||||||||||||||||||||||| |||||||||||| | |||||| |||||| | ||   |  || |  |   ||  || |  ||  |||  |||||||     | || |  | |||| |    ||| ||| | |||||
GTAATGGATATGCTTGGTCCCAGCCTTTGGGACGTGTGGAATTCAATGGGGCAGGCgtaagtatct---tccattcttt---tttatgatatcttttgtcactcatca-----gcttttagactaaatggtccaactatcgtaaacag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 6
GTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacctagatttatcccattcattgctgttgcctcgtgttcctcatcatt--tgtgtttatgtattaaaagtaataacatcattaacag---------------
|||||||| |||||||| ||||| ||||||||||| ||||||||  | || ||   ||||| |  |  |    |||| ||  ||  | | |  ||   ||    | |     | | ||||     |     ||  | |  ||||||||                
GTCATGGACATGCTTGGGCCCAGTCTTTGGGATGTATGGAATTCTGTTGGTCAACAgtaag-atttgtaccc-tcccttttgttagtataggttcacttttaatagctgcaatttatttaaactcttcctatataagccccattaacattttagttctggacag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 5'ss of exon 6
GTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacctagatttatcccattcattgctgttgcctcgtgttcctcatcatttgtgtttatgtattaaaagtaataacatcattaacag
|||||||| |||||||| || |||||||||||||| |||||||| || |  ||  |||||| || |  ||  || | ||   ||  |     | | || || |   ||  | || | |   ||| |   |  |   ||  ||   ||
GTCATGGACATGCTTGGGCCTAGCCTTTGGGATGTTTGGAATTCTTTGGCTCAATCgtaagtacttttatc-attctatattttcttaccaac-catgctcat--gcagatatgctaa---atttattatttttctat--ttggtag

upper sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 5
GTCATGGATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacc----------tagatttatcccattcattgctgttgcctcgtgtt----cctcatcatttgtgtttatgtattaaaagtaataacatcatta-acag
||||||||||||||||| || || ||||||||||| ||||| || | ||| ||| ||||||   |           ||  || || | || | |  ||| ||||    |         || | || |   | || |    ||||   |  ||| ||   |||
GTCATGGATATGCTTGGGCCAAGTCTTTGGGATGTTTGGAACTCTTCAGGCCAGGCgtaagtgacgctctattgacaggcttttcgc-ttgaataatgtggccttcgatcgacattcaattactttttactgtgaaactgaagttcgattatctttctgcag

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|66915500|gb|CX102348.1|CX102348
EST:     GATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGAC                         GATGTCTCCACATATGGGTGCTTGCATTGCTGTAGAGGCCATTTCAATTCT
genomic: GATATGCTTGGTCCCAGCCTTTGGGATGTGTGGAATTCATTAGGGCAGACgtaagcacct ... tcattaacagGATGTCTCCACATATGGGTGCTTGCATTGCTGTAGAGGCCATTTCAATTCT