Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttctttctgctcttatcttcagctgttattgtattacctttttatatctgaacatggatcctttagtatgataattgtcatctgaagttcact...

Basic information

species Oryza sativa
transcript LOC_Os01g14932.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14932.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G180065_T03 (Zea mays), 5'ss of exon 6
CGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttctttctgct-----cttatcttcagctgttattgtattacctttttatatctgaacatggatcctttagtatgataattgtcatctgaagttcact
 |||||||||||||||||||||||||||||||||||||| |||||||||||||| || ||||||||||| || ||||| |||||||| |||||||| ||||| | | ||||||||  |       ||   ||  | |||  ||| | |   ||||| | || ||   | ||  ||||   |||| | | |||       |  |  
TGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTAACTGGGAGGAGGCCCGTTGATATGTCACAGCCCTCTGGGCAGGAAAACCTAGTGACTTGGgtaacacttctttcttttaggagtatactatcttcagttcctgtgtga---ttttacagctaaattggaatattttaacgtgatgactctcagacactctgga--

upper sequence: LOC_Os01g14932.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA03G37910.1 (Glycine max), 5'ss of exon 8
CGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagattt---ctttctgctcttatcttcagc-tgtta---ttgtattacctttttatat---ctgaacatggatcctttagtatgataattgtcatctgaagttcact-----------------------------------------------------
 || || ||||||||||| |||||  | || ||||| |||||||| |||| |||||||||||||||||| ||  |||| || || ||||| || || |||||||| |     | || ||     || ||     ||| |   |   |  | |||   || |   ||  |  |  |      | ||||| |  | | || | || | ||                                                       
TGACGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGCAGGAAGCCTGTGGATATGTCACAGCCAACTGGACAAGAGAATCTTGTTACTTGGgttagttccataccttgtgagacaatgttatttatgtcaagttcagagcaacttcccatgttttctatatttatactaggaaatatgaaagatttaatttaaa-tccatcctttgaaacttttacattgagtaggtagttagtaagttcatttttcctttcag

upper sequence: LOC_Os01g14932.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA19G40500.1 (Glycine max), 5'ss of exon 7
CGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttag----atttctttctgctcttatctt-cagctgtta---ttgtattacctttttatatctga-acatggatcctttagtatgataattgtcatctgaagttcact-------------------------------------------------------------------
 ||||| ||||||||||| |||||  | || ||||| |||||||| |||| |||||||||||||||||| ||  |||| || || || || || || ||||||||    ||  |||  |  ||  || || |   ||| |   |   |  | |||   || | ||  | ||  || ||     |||   |   |    |  | ||||                                                                     
TGATGTTTATAGCTATGGTGTTGTCTTGCTGGAACTGCTTACTGGTAGGAAGCCTGTGGATATGTCACAGCCAACTGGACAAGAGAACCTTGTTACTTGGgttagttccataccttgttagtcacatgttacttatgtcaaattcagagcatcttcccatgtttgctatatttatactaggaaatgtcgaggatttaatttaattcaaatccatcctttgaaacttttaaacttttacattaagtaggtagttaataagttcatttttcctttcag

upper sequence: LOC_Os01g14932.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G02010.1 (Arabidopsis thaliana), 5'ss of exon 7
CGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttag-atttctttctgctcttatcttcagctgttattgtattaccttttt---atatctgaacat--ggatcctttagtatgataattgtcatctgaagttcact
 ||||| ||||| || || || || || || ||| |  | ||||| || |  ||||||||||||||||||||||| ||||| |||||||| || || ||||| || |     ||||  || | || | || | ||  || | |  | || |   | |  | | | |  | |  ||  | | | | |||| | ||      | ||  
TGATGTTTATAGTTACGGTGTGGTCCTTCTCGAATTGTTAACTGGTAGAAAACCTGTGGATATGTCACAACCTTCAGGCCAAGAAAATCTCGTCACTTGGgtaagtagaaagttcttgtcatctcct-agatcttcctgcactttcattgtcgaaaacttaagcttttgaagtctcgaatgtaaaaatt-tgattctggatgcag-

upper sequence: LOC_Os01g14932.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv07s0005g01590.t01 (Vitis vinifera), 5'ss of exon 6
CGATGTATATAGCTATGGAGTTGTTCTACTTGAACTACTTACTGGGAGGAGGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttag----atttctttctgctcttatcttcagctgttattgta--ttacctttttatatctga------acatgga---tcctttagtatgataattgtcatctgaagttcact------------------------------
 ||||| || |||||||||||||| || |||||  |  | || ||||| ||||||||||| ||||||||||| ||||| ||||| || || || || ||||||||    ||||||   |  | | ||||| | |  | || ||   ||    |||| | ||| |      ||        | ||||   |||| ||    |||     |   | |                              
TGATGTTTACAGCTATGGAGTTGTCCTCCTTGAGTTGTTGACAGGGAGAAGGCCTGTGGAGATGTCACAACCATCTGGACAGGAGAACCTTGTTACTTGGgttagtaatatttctaatttatttgatctttaccattcatggttccttgtgcttttctttctaataaattacccaagcatttctttccaatgaaaacgtacattctgggcaaaatagttagacaactggactgtcttgctttcag

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|29625207|gb|CB630218.1|CB630218
EST:     GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagGCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
EST: gi|88902229|gb|CI374837.1|CI374837
EST:     GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagGCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
EST: gi|88198013|gb|CI197863.1|CI197863
EST:     GGCCTGTGGATATGCCACAACCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCACGACCAATTTTACGAGATAAAGGTACGCTAGAAGAACTAGCTGATCCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagGCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
EST: gi|88198766|gb|CI198616.1|CI198616
EST:     GCCCTGTGAATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagGCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
EST: gi|29619813|gb|CB624825.1|CB624825
EST:     GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagGCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
EST: gi|29628587|gb|CB633598.1|CB633598
EST:     GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagGCACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCCC
EST: gi|3763865|gb|AU030604.1|AU030604
EST:     GCCCTGTGGATATGTCACACCCTTCTGGCCAGGAAAATCTAGTGACATGG                         GCCACGCCCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGATCC
genomic: GGCCTGTGGATATGTCACAACCTTCTGGCCAGGAAAATCTAGTGACATGGgttagatttc ... gactacgcagG-CACGACCAATTTTACGAGATAAAGATACGCTAGAAGAACTAGCTGAT-C