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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCATAACATCTTGCTCAAATCTGTGGGCTCTAATCATGGATGCTGGCACTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagcttgctccttgtttaactggtggaaaatcttagcaaactaatcacataacttttcaaggcaaagttacatataaggaagctcttgtatacattgtcaaatgtgattccatggttttctggtcatttgaag

Basic information

species Oryza sativa
transcript LOC_Os01g54100.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G095634_T01 (Zea mays), 5'ss of exon 5
TTGCATAACATCTTGCTCAAATCTGTGGGCTCTAATCATGGATGCTGGCACTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagcttgctccttgtttaactggtggaaaatcttagcaaactaatcacataacttttcaaggcaaagttac-atataaggaagc-tcttgtatacattgtcaaatgtgattccatggttttctggtcatttgaag
||||||||||||||| ||  |||| ||||||||||||||||||||||| ||||| ||||| |||||  ||||||| ||    |||||||| |||||||| ||||||    | | ||||| || | |  |  | ||  ||  |||| ||| |||     |||   | | |||||||| |  ||||  |   |||| | ||||||| ||||| | ||  |   | ||| |   ||| |||||
TTGCATAACATCTTGTTCCGATCTATGGGCTCTAATCATGGATGCTGGAACTGGTTTCACATCCCAAATTTATGAGCTCATTCCACATTTCCTTCACAAAgtgagtgatctacaccttggttcattc-tatataacttttacaaaataaccac-----tttgtcaagtaaagttactaagtaagctattatcttctctacattgccaaatctaatggc---ggtttatttccatgtgaag

upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA04G09070.2 (Glycine max), 5'ss of exon 12
TTGCATAACATCTTGCTCAAATCTGTGGGCTCTAATCATGGATGCTGGCACTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgag-tagcttgctcctt----gtttaactg-gtggaaaatcttagcaaactaatcacataacttttcaaggcaaagt-----tacatataaggaagctc-----ttgtatacattgtcaaatgtgattccatggttttctggtcatttgaag---
  |  |  | ||||| || ||||| ||||| || || ||||||||||||||||| |||||  | || ||||||||||| || || || || |||||||||||  | ||| ||     ||    ||   | |  | |     | || |  |  |  |   || |  |||  |   |   |     ||  | ||  | |  |      || | |   |     || ||      |     |   | |  | |  |    
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACCGCACAAGTTTATGAACTCTCTCCCCACTTCCTTCACAAGgttggctagtttatgttttagcggtggcattatgcgtgtggtgttggtgatatcctattatcatctttgtaactattatcgttttatctgtactgtattttactaattttgtttttaacttaacgtaggctaacaaactcacgtttctgtttaatag

upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA04G09080.1 (Glycine max), 5'ss of exon 12
TTGCATAACATCTTGCTCAAATCTGTGGGCTCTAATCATGGATGCTGGCACTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagcttgctccttgtttaactggtggaa--aatcttagcaaactaatcacataacttttcaaggc--aaagttacatataaggaagctcttgtatacattgtcaaatgtgattccatggttttctggtcatttgaag-------------------
  |  |  | ||||| || ||||| ||||| || || ||||||||||||||||| |||||  | || ||||||||||| || || || || |||||||||||   | ||| | |  | |||| | |||||| |  |  | |       |  | | || |  ||   |       |  ||          | || |  | ||  ||   || | || ||  |   |    | | |     ||                    
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACCGCACAAGTTTATGAACTGTCTCCCCACTTCCTTCACAAGgt---ttgctagtttat-gttttagtggtggcattatgcatgtggtgttggtgatatcatattatcatctttggaactattatcgttttatctgtactgtattttactaattttgtttttaacttaacgtaggctaacaaactcacgtttctgtttaatag

upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 5'ss of exon 12
TTGCATAACATCTTGCTCAAATCTGTGGGCTCTAATCATGGATGCTGGCACTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagcttgctccttgtttaactggtggaaaat---cttagc---aaactaatcacataact---tttcaa-ggcaaagtta---catataaggaagctctt-------gtatacattgtcaaatgtgattcca-----tggttttctggtcatttgaag------------
  |  || | |||||   |||| ||||||| ||||| |||||||| |||||||| || ||| | || |||||||| ||||||||  ||||||||||||||||| ||  | |     |||||||||   ||| | |     ||| |   | |    |||   || |   |||||   | |   |     ||||| |  | |||  |       |  |||  |   | || | |||  |     || |    |  || |||   |            
CAGTGTAGCGTCTTGTCAAAATTTGTGGGCGCTAATTATGGATGCAGGCACTGGTTTTACTGCACAAGTTTATGAGCTTTCACCCTATTTTCTTCACAAGgtgcgtctcatttcttttgtttaacccatggcatacatatttatctttacatgtgtcatgcaattaaatttcatcagtatgatcgaggcatattacaaggctacttctttcagcttactgttatacatttaattttaacaagtgatcaattaatctttttttgttctgtctatag

upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 12
TTGCATAACATCTTGCTCAAATCTGTGGGCTCTAATCATGGATGCTGGCACTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagcttgctccttgtttaactggtggaaaatcttagcaaactaatcacataacttttcaaggcaaagttacatataaggaagctcttgtatacattgtcaaatgtgattccatggttttctggtcatttgaag
| |  |  | ||||| |||||  | ||||| ||||| |||||||||||||| || |||| | | || ||||||||||| || ||  |||| |||||||||    || ||||     ||  ||||| ||      || ||||||    | | |      |        |||| |  ||  |||        |||| |  |    ||| | | || |  |  |||| |  |   | ||||
TAGTGTGGCTTCTTGTTCAAACTTATGGGCCCTAATTATGGATGCTGGCACAGGCTTCAGTGCTCAAGTTTATGAACTCTCTCCTTATTTCCTTCACAAG-

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|218496998|gb|FG950841.1|FG950841
EST:     CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAG                         GAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
genomic: CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagct ... tcatttgaagGAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
EST: gi|38483008|gb|CF966810.1|CF966810
EST:     CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAG                         GAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
genomic: CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagct ... tcatttgaagGAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
EST: gi|58688056|gb|CK076743.1|CK076743
EST:     CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAG                         GAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
genomic: CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagct ... tcatttgaagGAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
EST: gi|163919775|gb|EG710337.1|EG710337
EST:     CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAG                         GAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
genomic: CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagct ... tcatttgaagGAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
EST: gi|38565581|gb|CK085034.1|CK085034
EST:     CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAG                         GAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT
genomic: CTGGGTTCACTTCCCAGGTTTATGAACTTTCACCACATTTTCTTCACAAGgtgagtagct ... tcatttgaagGAATGGATTATGGACCAATGGGAAAGGAACTACTATATAACTGCACTTGCT