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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactaaagatgtcttcctttttctcttggtgtggcttcttgcttcctcttatcgatatgctgttttttcaatgagcagAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATAGTACGATATTGTCAG

Basic information

species Oryza sativa
transcript LOC_Os11g48090.3
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g48090.4 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA09G34860.1 (Glycine max), 3'ss of exon 12
-------------------------------------------------------------gtaagactaaagatgtcttcctttttctcttg-gtgtggcttc-ttgcttcctcttatcgatatgctgttttttcaatgagc--agAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATAGTACGATATTGTCAG
                                                              |   |  |||     ||| ||     ||  |  | | | | | |||||   |  | | |||    |||  |  ||||   |  |||| |||||||||||||| ||||| |  || ||||| ||||| |||||||| ||||||||||||| |
gtgaagctttgcaacacttttcactttgagtttgtgcttatttctgtctatttatcattttctgcaaaaaaatggagcttgctggagatcaggcatattgttccattgctgaattatgt-gatcaaatgtcataacaattttctcagAGCTCAATGGTCTTCTACGAAAATTCAGGACTGCAGAATCTCTATGACATTGTACGATATTGTCTG

upper sequence: LOC_Os11g48090.4 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv02s0087g00070.t01 (Vitis vinifera), 3'ss of exon 12
----------------------------------------------gtaagactaaagatgtcttcctttttctcttggtgtggcttcttgcttcctctta---tcgatatgctgttttttcaatgagcagAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATAGTACGATATTGTCAG
                                               ||    || |  | | |   | | | | |  || |    |||| ||   |  |    ||   |||    ||||||  ||||||||||||||||||||||||||| || | |||  |||||||||| ||||||||||||| ||||||||||
gtaaacctttctttggtattccatattttatatatacatatgtattttatatatatatgtatgtatgtatgtatgtatgtatatactcttactatttgatgagttctggatgaaactttttc--tgagcagAGTTCAATGGTCTTCTATGAGAATTCTGGATTGCAAAATCTCTATGACATAGTACAATATTGTCAG
















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|29682976|gb|CB679251.1|CB679251
EST:     TACCTTCAGAATGTATTCTGTATTATCGACCTGGTGATGTTCCACGCCAA                         AGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATA
genomic: TACCTTCAGAATGTATTCTGTATTATCGACCTGGTGATGTTCCACGCCAAgtaagactaa ... caatgagcagAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATA
EST: gi|58596568|gb|CK007096.1|CK007096
EST:     TACCTTCAGAATGTATTCTGTATTATCGACCTGGTGATGTTCCACGCCAA                         AGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATA
genomic: TACCTTCAGAATGTATTCTGTATTATCGACCTGGTGATGTTCCACGCCAAgtaagactaa ... caatgagcagAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATA
EST: gi|88289894|gb|CI525226.1|CI525226
EST:     TACCTTCAGAATGTATTCTGTATTATCGACCTGGTGATGTTCCACGCCAA                         AGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATA
genomic: TACCTTCAGAATGTATTCTGTATTATCGACCTGGTGATGTTCCACGCCAAgtaagactaa ... caatgagcagAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttggtgtggcttcttgcttcctcttatcgatatgctgttttttcaatgagcagAGTTCAATGGTCTTCTATGAAAACTGTGGCCTGCAAAATCTTTATGACATAGTACGATATTGTCAG
                                    ctgttttttc  CT-rich tract
                                       ttttttcaat  TA-rich tract