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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgagcattcctaagtgttgaatctaccatcttctatactggaagatttttgttttccttcaaaagctaaccccacaccacacacaccccacccc...

Basic information

species Oryza sativa
transcript LOC_Os04g59494.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G376731_T01 (Zea mays), 5'ss of exon 14
ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatga-gcatt----cctaagtgttgaatctaccatcttctatactg--gaagatttttgttttcct---tcaaaagctaaccccacaccacacacaccccacccc
|||||||| || || || ||||||||||| ||||||||||||||||||||||||||||| |||||||| ||||| |||||||| ||||||||||| ||||||| ||||  ||||    ||    | || | |||    | ||| | |  |  | |||  |  || |   |   | || ||  ||      |  | | | |         
ATTGTTGCCTTCCTAATCCCACTTCTTGATGATAAATTTCCTCTTATACGGAGTATTACGTGTTGGACGCTCTCTCGATATAGCAAATTCATTGTTCAGgtaacatgacacattagttccctgatatt-attctttttttttcgaaaacgcaggagagctgcgtatcattatattaagaggaaaaaggtgaggatagaaa---------

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G312026_T01 (Zea mays), 5'ss of exon 14
ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgagcattcctaagtgttgaatctaccatcttctatactggaagatttttgttttccttcaaaagctaaccccacaccacacacaccccacccc------
|||||||| ||||| || ||||||||||| ||||||||||||||||||||||||||||| |||||||| ||||| ||||| || ||||||||||| ||||||| ||| |||    |      |||   ||   |  |   | |      ||    |  || |  |  || || |       | |  ||                 
ATTGTTGCCTTTCTAATCCCACTTCTTGATGATAAATTTCCTCTTATACGGAGTATTACGTGTTGGACGCTCTCTCGATACAGCAAATTCATTGTTCAGgtaacatg-gcacatttgttccctgatattattcttattcttgcc-----atcccagggtttcagcggaaactcattatgttcaaatcattttaaggatgtggagt

upper sequence: LOC_Os04g59494.4 (Oryza sativa), 5'ss of exon 14
lower sequence: Vv18s0001g00910.t01 (Vitis vinifera), 5'ss of exon 14
ATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatga-gcattcctaagtgttgaatctaccatcttctatactggaagatttttgttttccttcaaaagc-taaccccacaccacac-acaccccacccc
||||| |||||||| || || ||| | ||||||||||||||| | ||||| ||||||||||| |||||||| || || | ||| ||||||||||| ||||||  || |   || | | | | ||  || |   ||  |  |  |||  |  ||||   | |  |||     | | |  ||  | ||           |  | 
ATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAGgtacaattataaatacattattcttccattt--tatagttgaagctgtgaacttttccatgtatttcttgttcatgaatccttaacatgttgtgtttgaggc-

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:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATTCCAATGGTCGTGAACAATTTGATAAAATCCTC
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTC
EST: gi|58668781|gb|CK057467.1|CK057467
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|29626307|gb|CB631318.1|CB631318
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|33797567|gb|CF324643.1|CF324643
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTC
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTC
EST: gi|58672477|gb|CK061163.1|CK061163
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|58666235|gb|CK054921.1|CK054921
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|33678128|gb|CF306367.1|CF306367
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|58656826|gb|CK045506.1|CK045506
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|58663523|gb|CK052209.1|CK052209
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTACAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
EST: gi|58608786|gb|CK036819.1|CK036819
EST:     GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG                         AGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT
genomic: GGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAGgtaatatgag ... gctgatgcagAGCCTAGAGCATCCCAATGGTCGTGAACAATTTGATAAAATCCTCTTAGGT