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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctggtgggctgttatttttaaacctggcatgctttctaatgcttgagactgggagttgtttatgatgttctgttgtgcaatgcggcattaagtg...

Basic information

species Oryza sativa
transcript LOC_Os06g02550.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 8
CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatg-gctggtgggctgttatttttaaacctggcatgctttctaatgcttgagactgggagttgtttatgatgttctgttgtgcaatgcggcattaagtg----------
|||||||||||||||||| ||||||| ||||| ||||| |||||||||||| ||||||||||||| |||||||||||||||||||| |||||||||||||||||| | |  ||   |  |  ||||  || |  ||||  ||  |||| ||||          | |   |  |  | ||||| | ||   |  | ||  |           
CCCTTTTCAGAGACTGAAATCCGAAACTGGTGCTTTCAAATATTTCAAGCTCTGAGTCACATGCACCAGCGTGGATATTTTCACCGTGACCTTAAGCCTGgtatgtggttttgcatttgttcttttttacatt-catg--ttgcaatggttgat--------ctatcctttcttgtttgttgcgaaacaagttactagttccagtcgtttt

upper sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA16G08080.1 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgta-tggctggtgggctgttatttttaaacctggcatgctttctaatgcttgagactgggagttgtttatgatgttctgttgtgca-atgcggcattaagtg
|  ||||| || | ||||||  ||||||||||||||||  | || |||| |||   | ||||||| ||||||||||| ||||| || || ||||||||||||| | | |  |        | || |      ||  |    |  |||  | | |  |   | || | |   ||    ||   || | || |   || |  | 
CTGTTTTCTGAAAATGAAGTTAGAAATTGGTGTTTTCAAGTTTTCCAAGGTTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgtttatcattgtgcaattgtgtttagggtttatgatgaaataatcgggtttc--acttatattatatagcatggaatgtatatactatataatata

upper sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA01G35190.2 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctggtgggctgttattttta-aacctggcatgctttctaatgcttgagactgggagttgtttatg-atgttctgttg--tgcaatgcggcattaagtg-
|  ||||| ||   ||||||  ||||||||||||||||  | || ||||   |   | ||||||| ||||||||||| || || |||||||| ||||||||||   ||  |    | ||   |  | || |||| |   | |    |       |||||| || ||| ||| || ||   | |  |||||||    |||   |  
CTGTTTTCTGAAGGTGAAGTTAGAAATTGGTGTTTTCAAGTTTTCCAAGGCCTTGCTTACATGCACCAGCGTGGATACTTCCATCGCGACCTGAAGCCTGgta---cttattttttatttcatccacaatctggtagattatggtttaggatgaactgggtgt-gttcatgtatattacatagcatgcaatgta-tattgtctta

upper sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA16G17580.1 (Glycine max), 5'ss of exon 5
CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctggtgggctgttatttttaaacctggcatgctttctaatgcttgagactgggagttgtttatgatgttctgttgtgcaatgcg-gcatta-agtg---
|  ||||| || | ||||||  ||||||||||||||||  | || |||| |||   | ||||||| ||||||||||| ||||| || || |||||||||||||    |       |||    |||     | |   | ||| | |||        ||||  |   || |  | |  |    |  ||||     | || | |    
CTGTTTTCTGAAAATGAAGTTAGAAATTGGTGTTTTCAAGTTTTCCAAGGTTTAGCTTACATGCACCAGCGTGGATACTTTCATCGTGATCTTAAGCCTGgtacttgtttataattgt-gcatttgtgtttag---ggtttatgatgaaaatagttgggtttcacttgtattata-taacatagaatgtatatactataatataa

upper sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT4G19110.1 (Arabidopsis thaliana), 5'ss of exon 7
CCCTTTTCAGAGACTGAAGTCCGAAATTGGTGTTTTCAGATATTTCAAGCTTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCC-------TGgtatggct----ggtgggctgt---tatttttaaac--ctggcatgctttctaatgctt--gagactgggagttgt--ttatgatgttc--tgttgtgcaatgcggcattaagtg------------------------
|  ||| ||||  ||||  ||  ||||||||| |||||  | || ||||   |   | |||||||||||||||| || || |||||||| ||||||||       || ||| ||     |||| |   |   ||  || ||||  |||   ||     ||    ||  |||  | |    |||  || | |   ||  ||||    | |  | || | | |                         
CTTTTTGCAGAAGCTGATATCAAAAATTGGTGCTTTCAAGTCTTCCAAGGCCTTTCTTACATGCATCAGCGTGGTTACTTCCACCGCGATCTTAAGCCAGgtaattgatatagccttgaggtgtgagatacatagcttcaaacatctgctctgaagattagcaattctgagtttagtcactgtctttctaacaatccttgtttaatagtttgtcactgaatatgtatattgtgttggttgttgcag

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|58674281|gb|CK062967.1|CK062967
EST:     TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|29638208|gb|CB643217.1|CB643217
EST:     TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|58662294|gb|CK050974.1|CK050974
EST:     TNTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|29641486|gb|CB646493.1|CB646493
EST:     TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|58677581|gb|CK066268.1|CK066268
EST:     TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|58657844|gb|CK046524.1|CK046524
EST:     -TTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|29658028|gb|CB654303.1|CB654303
EST:     TTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCCTAGTTACCAAGGAGCTCCTCAAGATAGCAGATTTTGGACTT
genomic: TTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTG-CTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTT
EST: gi|58685041|gb|CK073728.1|CK073728
EST:     CCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: CCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|29685601|gb|CB681876.1|CB681876
EST:     TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
EST: gi|58689016|gb|CK077703.1|CK077703
EST:     TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTG                         AAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG
genomic: TTTGAGTCACATGCATCAGCGTGGATATTTTCACCGCGACCTTAAGCCTGgtatggctgg ... gatatttcagAAAATTTGCTAGTTACAAAGGAGCTCATCAAGATAGCAGATTTTGGACTTG