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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaaatcttcacagattaaccaactgctcgatcattgtctattcaattgttttaaggtagcagcagattgaggagtctgaattaattgagtttaatctatctttaaatggcagCTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAG

Basic information

species Oryza sativa
transcript LOC_Os01g54100.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54100.1 (Oryza sativa), 3'ss of exon 7
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaactaaatcttcacagattaaccaactgctcgatcattgtctattcaattgttttaag-gtagcagcagattgaggagtctgaattaattgagtttaatctatctttaaatggcagCTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAG
                                     |   | ||||   ||||| |||| ||    | |  ||   |  | |    |  ||   |  ||||| |  | |  | |||||  |||| ||| ||||| || ||||||| || || ||||| ||||||||||| ||||||||||| ||
-----------------------------------gtacactttattt--ttgttataagagtgagcgtactttattgtctttctgctgctta--tccaatctgt--tgatcttgcagCATCCAAATGGCGAGATACTGCAACTGGACTACATGTTGAATATGACCAGCGTCCTGATGTTTTTAG

upper sequence: LOC_Os01g54100.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 7
gtaactaaatcttcacagattaaccaactgctcgatcattgtctattcaattgttttaaggtagcagcagattgaggagtctgaattaattgagtttaatctatctttaa-atggcagCTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAG
                    ||| |     | |     ||  | ||||    |  | ||        |  | ||     | |   |   ||  || |||||||  ||| | ||| |||| |||||||||||||||  |||||||||||| || ||||| ||||| || || || |||||||||||
-------------------gtaaactgtaacacatatttttcccattctgcagcataaatccgttcacttaatgtatttttttcttatcttctgtgtaatctaattttgacatgccagCCACCAAGTGGAGAGATAGTTCAACTGGCCTTCATGTTGAATATGATCAACGGCCAGATGTTTTCAG
















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|58680661|gb|CK069348.1|CK069348
EST:     TATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAG                         CTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGC
genomic: TATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAGgtaactaaat ... taaatggcagCTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcagcagattgaggagtctgaattaattgagtttaatctatctttaaatggcagCTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGCGACCTGATGTTTTCAG
                                     tctatcttt  CT-rich tract
                     aattaattgagtttaa  TA-rich tract