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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaattttccatcttcgtaagctttcatgtaaattgttctgaattatagataaaatacaaagacattgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGATTTGAGGCACATTCGGCGCTTGCGGTTTTGGCCGCTCAACAAGGTTTTGG

Basic information

species Oryza sativa
transcript LOC_Os03g53720.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g53720.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G171987_T01 (Zea mays), 3'ss of exon 3
gtaa-caaattttccatcttcgta----agctttcatgtaaa--ttgttctgaattatagataaaatacaaagacattgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGATTTGAGGCACATTCGGCGCTTGCGGTTTTGGCCGCTCAACAAGGTTTTGG
|||| ||   |||| || | | |     || | |   | |||  ||| |     |  ||  |    || | |     ||||||| ||||||| ||||||||||| ||||||||||| ||||||||||| |||||||||||| ||||||| || ||||||||||| ||||| |||||||||||  || 
gtaagcagggtttcaatttacttggcatagttctttagcaaaggttgatagtgttcttaattttggtatacaactcatgtttcccagATTGCGTTGGGTGGTCGGTATTCACGTGATTTCTTCAATCGGTATGGGGATTTGCGGCACATCCGACGCTTGCGGTTCTGGCCTCTCAACAAGGTGCTGA

upper sequence: LOC_Os03g53720.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G009843_T02 (Zea mays), 3'ss of exon 4
gtaa-caaattttccatcttcgtaagctttcatgt-----aaattgttctgaat---tatagataaaatacaaagacattgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGATTTGAGGCACATTCGGCGCTTGCGGTTTTGGCCGCTCAACAAGGTTTTGG
|||| |||  |||| || ||     ||  |  | |     |||  |||| |  |     ||  |    || |   | | ||||||| |||| || ||||||||||| || |||||||| ||||||||||| || ||||||||||||||||| || || |||||||| ||||| |||||||||||  || 
gtaagcaaggtttcaattttaacttgccatagtttttaagaaaaagttcagcgtgtccttaattttggtatacgaataatgtttcccagATCGCGTTGGGTGGTCGGTACTCACGTGATTTCTTCAATCGGTACGGGGATTTGAGGCACATCCGACGGTTGCGGTTCTGGCCTCTCAACAAGGTGCTGA

upper sequence: LOC_Os03g53720.2 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv08s0007g04220.t01 (Vitis vinifera), 3'ss of exon 3
-----gtaacaaattttccatcttcgtaagctttcatgtaaattgttc-tgaattataga---taaaatacaaagacattgttt---cctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGATTTGAGGCACATTCGGCGCTTGCGGTTTTGGCCGCTCAACAAGGTTTTGG
      | |  |   || |  || |  |||   |  | | |||| | | ||  |  ||     |||| |   || |   || ||   |  |||||||||| ||||||| |||||| || |||||||||||  | ||||| |||||||||||||| || || ||||| || |||||  | || |||||| | |
gtaagctgatcatccttgctactactaaagaaattctcttaattatgcatgggtgctaatgtctaaacttttaatatgctgattatcctcagATTGCCTTAGGTGGTCAATATTCCCGGGAGTTCTTCAACAGATATGGTGATTTGAGGCACATCCGCCGGTTGCGTTTCTGGCCCATGAATAAGGTTCTTG

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|29677828|gb|CB674103.1|CB674103
EST:     AGGATCACCTCGCGCTGATGATGGAGCTATTAGGAATGATGCCTCGAAAG                         ATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGAT
genomic: AGGATCACCTCGCGCTGATGATGGAGCTATTAGGAATGATGCCTCGAAAGgtaacaaatt ... tgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGAT
EST: gi|58686639|gb|CK075326.1|CK075326
EST:     GATCACCTCGCGCTGATGATGGAGCTATTAGGAATGATGCCTCGAAAG                         ATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGAT
genomic: GATCACCTCGCGCTGATGATGGAGCTATTAGGAATGATGCCTCGAAAGgtaacaaatt ... tgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGAT
EST: gi|218483668|gb|FG954460.1|FG954460
EST:     GATCACCTCGCGCTGATGATGGAGCTATTAGGAATGATGCCTCGAAAG                         ATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGAT
genomic: GATCACCTCGCGCTGATGATGGAGCTATTAGGAATGATGCCTCGAAAGgtaacaaatt ... tgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcatgtaaattgttctgaattatagataaaatacaaagacattgtttcctagATTGCCTTGGGTGGTCGATATTCACGTGAGTTCTTCAATCGTTATGGGGATTTGAGGCACATTCGGCGCTTGCGGTTTTGGCCGCTCAACAAGGTTTTGG
                                            ttgtttcct  CT-rich tract
        taaattgttctgaatt  TA-rich tract