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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttaccagaaaaaaaaattatagaatagctctgccattcatattggtaaataccaacacttcttgttctaacaaactcaatgacccgatc...

Basic information

species Oryza sativa
transcript LOC_Os01g64650.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G387076_T02 (Zea mays), 5'ss of exon 5
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttaccagaaaaaaaaattataga-atagctctgccattcatattggtaaataccaacacttcttgttctaacaa-actcaatgacccgatc
|| ||||| || |||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||| |    ||    ||      |||    | |||  || |        ||  |||     ||  |  |  ||||  |  ||   ||| ||     |  
GATCCTGCGGAAGCTGACAAATTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtgtgatgtatttaaatcttttattgcttacatatttcagtttacagaatatgtatcatgcattaagtactgttggattaatgttcattgctataa--

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G178244_T01 (Zea mays), 5'ss of exon 4
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttaccagaa---------aaaaaaattatagaat--agctctgccattcatattggtaaataccaacacttcttgttctaacaaactcaatgacccgatc
|||||||| || ||||||||  |||||||||| ||||||||||||||||||||||||||||| || |||||  |    ||    ||             | |||| | | |  || | |||     |||| | ||   |   |    | ||||  ||      ||||||        
GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtgatgtatttaaatcttttattgcttacattacatattttagttttgcagaatatat-gttatgcattgagtacttttgtattact--gttcaatg--------

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA09G13840.1 (Glycine max), 5'ss of exon 4
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttaccagaaaaaaaaattatagaatagctctgccattcatattggtaaataccaacacttcttgt-tctaacaaactcaatgacccgatc
|| ||||||||||| |||||||| |||||||||||||| || ||||||||||| ||||| ||||| ||||| |     |||   | |     |  | || |||    | || ||||| ||  |   | | ||   | ||| | | ||| | | ||  || |  |   
GATCCTGCAGAGGCAGACAAGTTGATGAAAATCCAGAGAGAGTTGGATGAAACCAAAATCATCCTTgtaagaacacaatacttcatatttgcaaaacagtatatgggttcccttcatcttt-tgtcttctaaagttacttctctttaagacattctgtgccatgtag

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA13G19950.1 (Glycine max), 5'ss of exon 4
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttaccagaaaaaaaaattatagaatagctctgccattcatattggtaaataccaacacttcttgttct-aacaaactcaatgacccgatc
|| |||||||||||||||||||| |||||||| ||||| || ||||||||||||||||| ||||| ||||| ||    |||   | |     |  | || |||    | || ||||| ||  ||  | | ||   | ||| |  | || | | ||  | |     | 
GATCCTGCAGAGGCTGACAAGTTGATGAAAATTCAGAGAGAGTTGGATGAAACAAAAATCATCCTTgtaagcatgcaatactttatatttgcaaaacagtatatgggttcccttcatcttt-taccttctaaagttacttctcttcaagacattctgtcatgtagtt

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT5G58060.2 (Arabidopsis thaliana), 5'ss of exon 5
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttac----cagaaaaaaaaattatagaatagctctgccattcatattggtaaataccaacacttcttgttctaacaaactcaatgacccgatc
||||| ||||||||||| ||| |  |||||||||||||||| |||||||| ||||| |||||||| ||||||  |   | |    |        | |   |   | |     |  | |    ||  ||| |  ||  | | ||||  | |  | ||  ||  |  |  | 
GACCCAGCAGAGGCTGATAAGCTGTTGAAAATCCAGAGGGAGTTGGATGAGACAAAGATTATCCTTgtaagtgctgtctccggtcctttcttgtagacccttatacataagcggtacttccttttctaagtttcagta-tacttgc-caattatacataa--atgctgtt

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT5G58180.1 (Arabidopsis thaliana), 5'ss of exon 4
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtat--ttctta---ccagaaaaaaaaattatagaatagctctgccattcatatt--ggtaaataccaacac-----------ttcttgttctaacaaactcaatgacccgatc-------------------------------
||||| ||||| ||||| ||| |  |||||||||||||||| |||||||| || || |||||||| ||||||    | | |    |  ||      |  |  |   |     | |  || | |||    || ||||||   |           ||||||||   |    | |    ||  | ||                               
GACCCGGCAGAAGCTGATAAGCTGTTGAAAATCCAGAGGGAATTGGATGAGACCAAGATTATCCTTgtaagtgccgtccctggttcttgattgttgacctgcatgctttgcttcctttttacattccaatacataccagttccctccattaagttcttgtttccaaggtcgcttaaacatggtcgttttatgctgacttttgttttatactacag

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv14s0060g00090.t01 (Vitis vinifera), 5'ss of exon 4
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttc--ttaccagaaaaaaaaattatagaatag-ctctgccattcatattggtaaataccaacacttc-ttgttctaacaaactcaatgacccgatc
||||||||||||||||| |||||  ||||||| |||||||| |||||||| || ||||||||||| || |||  |    ||     | |    | || ||    |  ||  | | | |  |||  |   | | |  | | | |||| ||      | |  |     ||| 
GACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTTgtgagtgctgaaattgtgcaagattttacttgtaatgcattctgcggcctccccattactc--ttctagtattcccttgtgct--tttgccccctactttgatt

upper sequence: LOC_Os01g64650.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv11s0206g00130.t01 (Vitis vinifera), 5'ss of exon 4
GACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtatttcttaccagaaaaaaaaattatagaatagctctgccattcatattggtaaata--ccaacacttcttgttctaacaaactcaatgacccgatc
|| ||||| |||||||| |||||  ||||||| ||||| || ||||||||||| |||||||| || || ||| ||  ||  ||     |  | ||   | |||    | |  |  ||||   || ||   |   | |||    |  | |  |  |||   ||| |   
GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTTgtgagttttaatttacaattgcattattttatgtatatagatccagtatatataaatagattgtctttctctttccttctttatcagttcatatacctgt--

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|218482998|gb|FG956126.1|FG956126
EST:     ACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTA                         CATAAAACTATTGAGAGTGTGCTCCAAAGAGGGGAAAGATTGGATAGCTTG
genomic: ACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtattt ... atttgaacagCATAAAACTATTGAGAGTGTGCTCCAAAGAGGGGAAAGATTGGATAGCTTG
EST: gi|86531269|gb|CI171475.1|CI171475
EST:     ACAAGTTAATGAAAATCCAGAAGGACTTGGATGAAACAAAAATTATCCTA                         CATAAAACTATTGAGAGTGTGCTCCAAAGAGGGGAAAGATTGGATAGCTTG
genomic: ACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTAgtaagtattt ... atttgaacagCATAAAACTATTGAGAGTGTGCTCCAAAGAGGGGAAAGATTGGATAGCTTG