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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGGTTTGCTCTTGGTGGAAAGCAGAATTACACAAGCAGAAATGCCACACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttccagccaaaacttgattctgaatttgtcctgttgttgtttcaatgtgtttcttatattctatcagagccctaatgtttctctctctcttttttttttttggtttcgtttgcactgacatgatcaccatttaccag

Basic information

species Oryza sativa
transcript LOC_Os03g24220.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G081322_T01 (Zea mays), 5'ss of exon 17
TTTTGGTTTGCTCTTGGTGGAAAGCAGAATTACACAAGCAGAAATGCCACACATGATGTTGTTA---GAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttccagccaaaacttg-attctgaatttgtcctgttgttgtttcaatgtgtttcttatattctatcagagccctaatgtttctctctctcttttttttttttggtttcgtttgcactgacatgatcaccatttaccag
   |||| | || ||||||||||||||| ||| ||||  ||||||||  ||| |||||||||||   |||||||||| |||||||| |||||  |||||||||||||||   || |||| |||  ||||  | | | ||  | ||||    || ||||||| ||||  | |||                                                                         
---TGGTCTTCTATTGGTGGAAAGCAGAGTTATACAAATAGAAATGCTGCACCTGATGTTGTTATTAGAGAGCCTCATTTGTATACCTTCTCTCTGAGGAATGgttagtagtagtcaaaccttctattcacagtgtttctcgatgttaccacattgtgttt-ttatgctttatag-----------------------------------------------------------------------

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G359566_T01 (Zea mays), 5'ss of exon 2
TTTTGGTTTGCTCTTGGTGGAAAGCAGAATTACACAAGCAGAAATGCCACACATGATGTTGTT---AGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttccagccaaaacttg-attctgaatttgtcctgttgttgtttcaatgtgtttcttatattctatcagagccctaatgtttctctctctcttttttttttttggtttcgtttgcactgacatgatcaccatttaccag
   |||| | |||||||||||||||||| ||| ||||| |||||||    || ||||||||||   ||||| ||||| |||||||| |||||  | |||||||||||||   || |||| |||  ||||  | | | ||    | ||    || | ||  | ||||     ||     |||||||||||   | ||  |||||  |||                                      
---TGGTCTTCTCTTGGTGGAAAGCAGAGTTATACAAGTAGAAATGTTGTACCTGATGTTGTTCTTAGAGAACCTCATTTGTATACCTTCTCTCTTAGGAATGgttagt---agtcaaaccttctattcacagtgtttctcaatcttaccacattctgggttttatg---catagcgaccctaatgttttgttttcattttttggtttc-------------------------------------

upper sequence: LOC_Os03g24220.2 (Oryza sativa), 5'ss of exon 16
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 5'ss of exon 15
TTTTGGTTTGCTCTTGGTGGAAAGCAGAATTACACAAGCAGAAATGCCACACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgtta-gttcc--agccaaaa------cttgattctgaatttgtcc-------tgttgttgtttcaatgtgt-------ttcttatattctatc---agagcc-ctaatgt-ttctctctctcttttttttttttggtttcgtttgc--actgacatgatcaccatttaccag
||||||||||| ||||| ||||| |||||||||||||||| ||| ||  | || ||  |||||||||| || ||||| |  ||||||||||| |  || ||| |  ||||  |  || ||      | | ||| | | ||  ||        | |  |||  ||||||  |        | ||| |   | |    | |||   |||| | ||||  |||  ||||||||| ||  || ||  ||   |||      ||    |||   |||
TTTTGGTTTGCGCTTGGAGGAAAACAGAATTACACAAGCAAAAAAGCGTCCCAGGAGATTGTTAGAGATCCCCACTTATTCACATTCTCATTCAACAAAGgtcacattccttattcataagggctgcatcatttttatttcttctacctcgatataattgcctcaatggttagatgagcttttaaaacttgttgataaagctgttaatctcttctaactccatttttttttcttccttccggctgatgactattgccatgtggattcctcag

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|58596217|gb|CK006745.1|CK006745
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|88351837|gb|CI624642.1|CI624642
EST:     ACATGATGTTGTTAGAGACCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|25798468|gb|CA754429.1|CA754429
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|396941448|gb|HO188657.1|HO188657
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|88722817|gb|CI746327.1|CI746327
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|12404685|gb|AU166286.1|AU166286
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAGGTCACTGAA
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAGGTCACTGAA
EST: gi|33674859|gb|CF303098.1|CF303098
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|58674368|gb|CK063054.1|CK063054
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|58610643|gb|CK038355.1|CK038355
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG
EST: gi|58672994|gb|CK061680.1|CK061680
EST:     ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATG                         GGAAACTGGAG
genomic: ACATGATGTTGTTAGAGAGCCTCACTTGTATACATTCTCATTGAGGAATGgttagttcca ... catttaccagGGAAACTGGAG