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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAGAAGCAAATAAGTCATAACGTGGCCAGATTCAAATTTGCTCTTCCAACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattccgccttatgcctttctttatgaagtttgctacccttttttttttacataaattggaaaaatgtatgtgctattcttttag

Basic information

species Oryza sativa
transcript LOC_Os01g59930.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59930.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G133213_T01 (Zea mays), 5'ss of exon 2
AAAAGAAGCAAATAAGTCATAACGTGGCCAGATTCAAATTTGCTCTTCCAACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattccgccttatgcctttctttatgaagtttgctacccttttttttttacataaattggaaaaatgtatgtgctattcttttag
|||||||||||||||||||||| || ||||| ||||| || ||||||||||||||||| |||||||||||||||||||| ||||| |||||||| ||||||||| ||||| ||||| | ||||  ||| ||     |  |||    ||| ||| || || ||  |     | |   |  ||| |      
AAAAGAAGCAAATAAGTCATAATGTTGCCAGGTTCAAGTTCGCTCTTCCAACTCCAACTTCTGTATTGGGCCTTCCAATCGGTCAACATATCAGCTGCAGgttttgattctgccttttcccttaattt-tg----cttttacatcatttctttaac-tatatctgtgttctcttgtttttatgcag----

upper sequence: LOC_Os01g59930.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA19G29720.1 (Glycine max), 5'ss of exon 2
AAAAGAAGCAAATAAGTCATAACGTGGCCAGATTCAAATTTGCTCTTCCAACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattcc--gccttatgcctttctttatgaagtttgctaccct------tttttttttacataaattggaaaaatgtatgtgctattcttttag--
|       ||  | || ||||| || || |  |||| |||||| |||||||| || || ||||| ||||| ||||||||||| || || || |||||||||||  | | ||     || | | | | | | |     |||  |   |      ||  ||||    | | ||    |  || |     | |||| |||   
AGCGTGCACAGCTGAGCCATAATGTTGCTAAGTTCACATTTGCACTTCCAACACCTACATCTGTTTTGGGTCTTCCAATTGGGCAACACATAAGTTGCAGgttccgttgcctgatatttttcttgtttctgttttccttgtcaatttaattagttcattttgtgtttagtttagtatctgcaaaatttgttctcttaatg

upper sequence: LOC_Os01g59930.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA08G24510.1 (Glycine max), 5'ss of exon 2
AAAAGAAGCAAATAAGTCATAACGTGGCCAGATTCAAATTTGCTCTTCCAACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggat----tccgccttatgcctttctttatgaagtttgctacccttttttttttacataaattggaaaaatgtatgtgctattcttttag-------------------------------------------------
| ||||  ||  | || |||||||| || |||||||||||||| ||||| |||||  | || ||||||||||||||  ||||  |  | ||   |   ||||| |||     |   ||||||    |||| |||  | | |  ||   ||   || |  | |  | |  ||| ||  ||    | | | || |                                                  
AGAAGACTCAGCTCAGCCATAACGTTGCAAGATTCAAATTTGCCCTTCCTACTCCTTCTTCGGTATTGGGCCTTCCTGTTGGAAAAAACATACTTGCTAGgttaggaaaatatataccttatattgttctatat--actgtagtatatttaacttatcccgttgaataaaaacat-cataaattttacattaaaaaaatgagagagagagagagtataactgttatttgttaatgttaagcag

upper sequence: LOC_Os01g59930.2 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv06s0009g01710.t01 (Vitis vinifera), 5'ss of exon 2
AAAAGAAGCAAATAAGTCATAACGTGGCCAGATTCAAATTTGCTCTTCCAACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgt---ttggat---tccgccttatgcctttctttatgaagtttgctacccttttt-tttttacataaattggaaaaatgtatg-tgctatt-----cttttag----------------------------------------
||   |  ||  | || ||||| ||||| | ||| | ||||||||||||||| ||||| || || ||||| ||||||||||| || ||||| ||||||| ||   |||| |   |  | ||| |   |   || ||  |   |||||    |||| ||| | | ||  |  || | |||||||    ||||     |  ||||                                        
AACGCACCCAGCTCAGCCATAATGTGGCTAAATTTATATTTGCTCTTCCAACACCAACTTCAGTGTTGGGACTTCCAATTGGACAACATATGAGTTGCAAgtaggttggttgttttggtcttgtat-tccattcatatacaatgctatgtgttttgtttcttcgtatgt--gatacatgtatgacattattgagtgccattagattctatcatgtgataaccttttatagtttttcccaacag

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|88362855|gb|CI614211.1|CI614211
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
EST: gi|88763102|gb|CI772658.1|CI772658
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCG
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCG
EST: gi|58685456|gb|CK074143.1|CK074143
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
EST: gi|58684839|gb|CK073526.1|CK073526
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
EST: gi|88736272|gb|CI759780.1|CI759780
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCA
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCA
EST: gi|58595179|gb|CF993487.1|CF993487
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
EST: gi|88388215|gb|CI627754.1|CI627754
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATAC
EST: gi|2309816|gb|C25971.1|C25971
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTTCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATA
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATA
EST: gi|58603188|gb|CK013716.1|CK013716
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
EST: gi|427743|gb|D23879.1|D23879
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
EST: gi|88391603|gb|CI600792.1|CI600792
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTA
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTA
EST: gi|117244284|gb|CT843075.1|CT843075
EST:     ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAG                         AGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC
genomic: ACTCCAACCTCTGTATTGGGCCTTCCAATTGGTCAGCATATCAGTTGCAGgtttggattc ... attcttttagAGGACAAGATGCTACAGGCGAAGAAGTAATCAAACCTTATACCCCTACTAC