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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCAGGGAAGAATTCAAGAGTTGTACAATGCTTATAATTGCTCACCGCCTGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgcttttgaagagatgtttcttcttttgttctggtgctttgcctctcatttgaatagtacaacaataaattcctgataatatcaacatgcttgatag...

Basic information

species Oryza sativa
transcript LOC_Os04g52900.1
intron # 25
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 25
lower sequence: GRMZM2G084181_T01 (Zea mays), 5'ss of exon 25
AATCAGGGAAGAATTCAAGAGTTGTACAATGCTTATAATTGCTCACCGCCTGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgcttttgaagagatgtttcttcttttgttctggtgctttgcctctcatttgaatagtacaacaataaattcctgataatatcaacatgcttgatag-------
|||| | ||||||||||||||||| |||||||| |||||||| |||||  ||||||| || |||||||||||||||||||||||||||||| ||||| ||||||| || |       | | |||| ||||||| ||     |||  ||| ||   |   |||    |  |  ||| || | || |    ||  ||| |||       
AATCCGAGAAGAATTCAAGAGTTGCACAATGCTCATAATTGCCCACCGTTTGAACACGGTCATTGACTGTGACAGGTTGCTTATTCTAAGTTCTGGGCAGgtatg-ttctatccttttatgtcttgttttgttgtg----cttgattcttataatagctgtatgttagcattttcatg-tcatgtgctgattattg-tagtgttact
















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|58655688|gb|CK044368.1|CK044368
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|33380305|gb|CF195648.1|CF195648
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGANN                         NTTTTGGAGTTCGACTCTCCTGNNNATCTTTTGAACAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|33685919|gb|CF314158.1|CF314158
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|112787004|gb|EE591866.1|EE591866
EST:     GACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: GACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|88354423|gb|CI624813.1|CI624813
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|58693939|gb|CK082626.1|CK082626
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|58658993|gb|CK047673.1|CK047673
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATC
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATC
EST: gi|33380452|gb|CF195795.1|CF195795
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAACAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|33380456|gb|CF195799.1|CF195799
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAACAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|33380394|gb|CF195737.1|CF195737
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAACAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|58657519|gb|CK046199.1|CK046199
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|66919516|gb|CX106364.1|CX106364
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|38481628|gb|CF965717.1|CF965717
EST:     TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAG                         GTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: TGAACACTGTTATTGACTGTGACAGGTTGCTTATTCTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
EST: gi|38477879|gb|CF962012.1|CF962012
EST:     CTAAGTGCTGGG-AG                         G-TTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT
genomic: CTAAGTGCTGGGAAGgtatgctttt ... tacttttcagGTTTTGGAGTTCGACTCTCCTGAGAATCTTTTGAGCAATGAGCACAGTGCT