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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttaattcatgaacatgagcatgctgttatgttgttattgtatttccatccatgctggatgtgatcaacctttttcctgctgttgctagtacgataaggtgcaagaattacttcaactccctctctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCATTTCTCCCAACATTGTATACTTCATTTCAG

Basic information

species Oryza sativa
transcript LOC_Os04g23890.4
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g23890.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G032351_T01 (Zea mays), 3'ss of exon 12
gtaattttaattcatgaacatgagcatgctgttatgttgttattgtatttccatccatgctggatgtgatcaacctttttcctgctgttgctagtacgataaggtgcaagaattacttcaactccctctctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCATTTCTCCCAACATTGTATACTTCATTTCAG
                    | | ||   | |||       ||   |||||||    | |   || |   |||  |||  |    | |   | |     | |||||||   | |   | || |          ||||||| |||||||||||||| ||||||||||||||| |||||||||||||||| |||||||||||||| ||||||||||| |||
--------------------taaacagattcttacaa---gataacatttccaaatgtac---atct---caagttttcactcattttcaattgatttttgaggtgcacttagttgctgaaatg---------tgcagGTTCATCGAGCTTGTATGGAAAGAGAAATATACTCACTATTGGATCATCCTTTTCTCCCAACATTATATACTTCATTCCAG
















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|702138|gb|D48429.1|D48429
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGNTCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|33799059|gb|CF325389.1|CF325389
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29612810|gb|CB617823.1|CB617823
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|14571435|gb|BI118803.1|BI118803
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29666947|gb|CB663222.1|CB663222
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|58587914|gb|CF986222.1|CF986222
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29615865|gb|CB620877.1|CB620877
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29686409|gb|CB682684.1|CB682684
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29680789|gb|CB677064.1|CB677064
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTAT
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTAT
EST: gi|29613843|gb|CB618856.1|CB618856
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29684157|gb|CB680432.1|CB680432
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
EST: gi|29646469|gb|CB651476.1|CB651476
EST:     TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAG                         GTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA
genomic: TATTTGCAATGAAGGCCATGGACAAGTCAGTGATGTTGAACCGCAACAAGgtaattttaa ... tctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgttgctagtacgataaggtgcaagaattacttcaactccctctctcttgcagGTACATCGAGCTTGTATTGAAAGAGAAATATACGCACTATTGGATCATCCATTTCTCCCAACATTGTATACTTCATTTCAG
                             ttacttcaactccctc  CT-rich tract
                        aagaatta  TA-rich tract