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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttatcaattaactattgctgtatttaattccttgaacttcattaggaaaagagtagcatgtgtgtattgagactcacttttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattcatttgcag

Basic information

species Oryza sativa
transcript LOC_Os04g59494.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59494.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G312026_T01 (Zea mays), 5'ss of exon 13
AACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttatcaattaact-attgctgtatttaattccttgaacttcattaggaaaagagtagcatgtgtgtattgagactcactt--ttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattcatttgcag
||| || |||||| | ||||||||||||||| |||||||||| | | | || |||||||| ||||| ||||||| ||| ||||| || || ||||| |||||| | |||   | |||   ||   ||||  ||  | | |   ||     || | |  |||   |||| | |  |       |  |  || | |   |||                                                                   
AACAGATGATGATTCTTGGAAGGAGAGGGAAACTGCTGTTTTATGTCTAGGCGCTATAGCAGAGGGGTGCATTAGTGGTCTATACCCACACCTTCCTCAGgtaatcttaatgagtaatggataattgtagctatgttcatatgctctgcaagaatagtagtcaaatgtattttcttttgtctaaatgattaaatatctca-------------------------------------------------------------------

upper sequence: LOC_Os04g59494.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G376731_T01 (Zea mays), 5'ss of exon 13
AACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttatcaattaactattgctgtatttaattccttgaacttcattaggaaaagagtagcatgtgt-gtattgagactcacttttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattcatttgcag
||| || ||  || | ||||||||||||||| |||||||||||| | | || |||||||| ||||| ||||||  ||| ||||| || || ||||| |||||| | |||   |  ||  | |  || ||  ||||  | |  ||   ||   | | | |  ||| |  | ||| | | |   | ||||  ||  ||| | |   | ||                                                         
AACAGATGACAATTCTTGGAAGGAGAGGGAAACTGCTGTTTTGTGTCTAGGCGCTATAGCAGAGGGGTGCATTGGTGGTCTATACCCACACCTTCCTCAGgtaatcttaatgaacaatgagtaatggat--aatttatgg--ctatgttt--atatgcgctgcaagaatagtagttaaat--attttttcttctttcgtataaatgtt---------------------------------------------------------

upper sequence: LOC_Os04g59494.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA20G24040.1 (Glycine max), 5'ss of exon 13
AACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttatcaattaactattgctgtatttaattccttga------acttcattaggaaaagagtagcatg-tgtgtattgagactcacttttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattcatttgcag
   ||  |||||||| ||||| || |||||||||||||| ||| || ||||||||||||  || || ||||| | ||| || ||||| |||||   | |||||||||      ||   |  || || ||||||| |            | | |||  |  || | |||  |  | ||| || | | |   ||    |                                                                          
TGGTGGGGATGATGCTTGGAAAGATAGGGAAGCTGCTGTCTTGGCTCTTGGTGCTATAGGCGAAGGTTGCATCAATGGTCTTTATCCGCATCTGTTGGAGgtattttctgttctttggttctggtgaatttaatccaaaagcaaatggcctaattgtgggaaaaatagtttaatttgttttaaaatttgattaaagtgcg-----------------------------------------------------------------------

upper sequence: LOC_Os04g59494.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA10G42960.1 (Glycine max), 5'ss of exon 13
AACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttatcaattaactattgctgtatttaattccttga------acttcattaggaaaagagtagcatg-tgtgtattgagactcacttttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattcatttgcag
   ||  |||||||| ||||| || |||||||||||||| ||| || ||||||||||||  || || ||||| | ||| || ||||| |||||   | |||||||||      ||   |  || || |||| || |            ||| |||  |  || | |||  |  | ||| || | | |   ||    | |                                                                        
TGGTGGGGATGATGCTTGGAAAGATAGGGAAGCTGCTGTCTTGGCTCTTGGTGCTATAGGTGAAGGTTGCATCAATGGTCTTTATCCGCATCTGTTGGAGgtattttctgttctttggttctgatgaattttatccaaaagcaaatggcttgattgtgggaaaaatagtttaatttgttttaaaatttgattaaagtatg-----------------------------------------------------------------------

upper sequence: LOC_Os04g59494.2 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 5'ss of exon 13
AACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgta--tttttatcaattaactattgctgtatttaattccttgaacttcattaggaaaagagtagcatgtgtgtattgagactcacttttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattcatttgcag
 ||||| |||||  | ||||| || ||||||||||| |||||  || |||||||| |||| ||||| ||||||||||| || ||||| ||| |  |  |||||   |||| |  | | |  |     |||  ||| | || ||| |   |           ||  ||    ||    ||  | |  ||||   |||    |                                                                 
TACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATCCTCATTTATCAGAGgtaaacttttgttgactcagaaactgagtagctaagttct-gaattggttgcattttgatttataataatcgttgcaagtatgatgtttgtgctctgagac-----------------------------------------------------------------

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|58612862|gb|CK040574.1|CK040574
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|58668781|gb|CK057467.1|CK057467
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|29626307|gb|CB631318.1|CB631318
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|33797567|gb|CF324643.1|CF324643
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|58672477|gb|CK061163.1|CK061163
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|58666235|gb|CK054921.1|CK054921
EST:     ATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: ATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|33678128|gb|CF306367.1|CF306367
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|58662574|gb|CK051260.1|CK051260
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCC
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCC
EST: gi|58656826|gb|CK045506.1|CK045506
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|58663523|gb|CK052209.1|CK052209
EST:     GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GTGCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
EST: gi|58608786|gb|CK036819.1|CK036819
EST:     GCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAG                         ATAGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG
genomic: GCTATAGCGGAGGGATGCATTACTGGGCTATATCCCCATCTTCCGCAGgtatttttat ... tcatttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGG