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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCTTTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtatttcttcttcctttcactatttaatatgttcatgggcatgcatgtgcattttcaaataacattccaaataaaagcaaattaagagtttgaaccgtgt...

Basic information

species Oryza sativa
transcript LOC_Os03g49770.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49770.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G157172_T01 (Zea mays), 5'ss of exon 5
GCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCTTTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtatttcttcttcctttcactatttaatatgttcatgggcatgcatgtgcattttcaaataac-attccaaataaaagcaaattaagagtttgaaccgtgt
||||||||| |||||||| |||||||||||  |||| ||||| |||||||||||||| |||||||||||||||||||| || |  |||||||||||||||||||| ||||||||| || ||  | |  |  || ||       ||  ||   | | | ||    | | ||| ||     |||      |||| |  | | |
GCCTGTTTACTTCAATGAGCCACTCTCATCGCTACAAAAATGTTTTGAAGATCTTGAATATTCCTACCTTATTGATCGTGCATCCGAATGGGGGAAAAGGgtattacttcttcctctccctgct-agcacttttattcatgcacagatgttatctaatatgttgaatgcaagtaggtataaacacttggttttatactttt

upper sequence: LOC_Os03g49770.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G147332_T01 (Zea mays), 5'ss of exon 4
GCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCTTTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtattt-cttcttcctttcactatttaatatgttcatgggcatgcatgtgcattttcaaataacattccaaataaaagcaaat-taagagtttgaaccgtgt-----
||||||||| |||||||| ||||| ||||| ||||| ||||| ||||||||||| ||||||||||||||||||||||| || | |||||||||||||||||||||| ||||||||| || ||  | |  || |||||       |||| |||  |     ||| ||    |||  ||| |  | |||    |||     |       
GCCTGTTTACTTCAATGAGCCACTTTCATCGTTACAAAAATGTTTTGAAGATCTGGAGTATTCCTACCTTATTGATCGTGCATCTGAATGGGGGAAAAGGgtatttacttcttcctctccctgct-agcattttcatt------catgcgcacatctctctaatatgttgaatgcaagtagctataaacacttggtttattagattt

upper sequence: LOC_Os03g49770.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g03790.t01 (Vitis vinifera), 5'ss of exon 4
GCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCTTTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtatttcttcttcctttcactatttaatatgttcatgggcatgcatgtgcattttcaaataacattcca-aataaaagcaaattaagagtttga-accgtgt
 |||||||| || ||||| || ||||| ||| | || ||||| ||||||||||| || ||||| || ||| ||||||| ||| |||||||||| |||| |||   | |   |      |||   || | | ||  || |    |||       |    ||  | ||  | ||     ||   |||    | | | || || |
TCCTGTTTACTTTAATGAGCCTCTCTCTTCTCTGCAAAAATGTTTTGAAGATCTGGAATATTCATATCTTCTTGATCGGGCTCATGAATGGGGAAAAATGgtgagtttggataaga--acttggtagtctttttctgtggtgtcattgattggtaagcatgcctttgtagaacttgtgcgttttatttatatcatactgtat

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|29682317|gb|CB678592.1|CB678592
EST:     ATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGG                         GGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
genomic: ATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtatttcttc ... aaaaactcagGGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
EST: gi|27546683|gb|CA764876.2|CA764876
EST:     ATCTTGAGTATTCCTACCTTATTGATCGCGCTTACGAATGGGGGAAAAGG                         GGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
genomic: ATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtatttcttc ... aaaaactcagGGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
EST: gi|66924363|gb|CX111211.1|CX111211
EST:     ATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGG                         GGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
genomic: ATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGgtatttcttc ... aaaaactcagGGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
EST: gi|163927376|gb|EG709904.1|EG709904
EST:     GCTTATGAATGGGGGAAAAGG                         GGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC
genomic: GCTTATGAATGGGGGAAAAGGgtatttcttc ... aaaaactcagGGCAATAGTCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGC