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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag

Basic information

species Oryza sativa
transcript LOC_Os04g57140.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggc-tgtgaaataaccatctgatatttag------------------
| | ||||| |||||||||||||| ||||||||||| |||||||||||||||||| |||| |||||||| |||||||||||||| |||||||| ||||||||   || ||||  |     ||| |||| |||||| |   | |   | ||| | || | | | | |    |||                  
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgt--attctaaagtttcg--aggcaatagttcataatgcatctgatcctgttatatcatc-tataactgatagaataaccatgttttttag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G070273_T01 (Zea mays), 5'ss of exon 10
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactat-gtgtaggctgtgaaataaccatctgatatttag------------------
||| ||||| |||||||||||||| ||||||||||| ||||| |||||||||||| | || ||||||||||||||||||||||| |||||||| ||||||||   || |||| ||     ||| |||| || ||| ||  |   |  |||| | || | |    | | ||                     
ACTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTCTTCTTTAAAATGCGGGTTGCTGGTGTTCTTCATATCTTTCAATTTGAAACAAAGCAGgt--attctaaagcttcg--aggcaatagtttataatacagccgatcctgttatatcatccatagctgttagaataacgatgactttttag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA01G35950.1 (Glycine max), 5'ss of exon 12
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgt--tagt---tttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataac-catctgatatttag--------------------------------------------
  |||| || || ||||||||||| ||||||||||| || || || ||||||||| |||| || ||||||||||| || |||||||||||||| ||||||||  |||     | |      | | |    |  | |  |  ||  |   | || || | | |  ||| |  |  |||                                             
GTTGAGGGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGAGTTGCAGGTGTTCTTCACATATTTCAGTTTGAAACAAAGCAGgtattagcatgctcagggacattctactctaccaatt-tcttaatttcggcctttggacttattcatatcttcattactttggagttattttatattattagtattttatcattctttgaag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 15
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag-------
  ||||||| || ||||||||||| ||||||||||| || || || ||||||||| |||| || |||||||| || || || ||||||||||| ||||||||    |     | |  |    | |  || |     |     ||   ||| | |     || | || | | |       
GTTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTCTTTTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataatacctttgttgatgttgcacaaactttctttggaattattttgtcacactggtattttatctcttggttgtag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA09G32740.1 (Glycine max), 5'ss of exon 12
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgt-tagt-tttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag--------------
  ||||||| || ||||||||||| ||||| ||||| || || |||||||||||| |||| || |||||||| || || || ||||||||||| |||||||| || |   |   |   |      | | ||  | |  | | | | |  | |    |  |   |||||||||                
GTTGAGAGACATAATGCAATTTGGAAGCAGTAATACTGCAGTCTTCTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataatacctttgttgatgatgtcacacaaacccttgtttctttggaat-tattttgcctcactgatattttatctatttgttgtag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA11G09480.1 (Glycine max), 5'ss of exon 12
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag-----------------------------------------------------
| ||||||| || ||||||||||| ||||||||||| || || || ||||||||| | || || ||||||||||| || || ||||||||||| ||||||||    ||   || |  |     |    | || | |||  | |    |  ||  |    |  |||    ||                                                      
ATTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGGGTTGCAGGTGTTCTTCACATATTCCAGTTTGAAACAAAGCAGgta---ttggcatgttcagggacactgtactcttcctagttcttaatttcgacctttggacttgactcatatcttcattactttgaagttattttattttattggtattttatcattctttgaag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggct----gtgaaataaccatct--gatatttag-----------
|||  | || |||||||||||||| ||||| || || ||||| || || |||||||||||||||||||||||||| || |||||||| || || || ||||||   |  | ||| |||   |   || ||| ||| ||||       |     ||| |||  ||  |  | ||  | |           
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtt---taaacatcactatttgtggatcatt-atattatgaagcaattccttatgagatattcaatttgggtaacttgtatgtttgtag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagt-----tttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag----------------------------------------------------------
||| |||||||| ||||||||||| ||||||||||| ||||| || ||||| |||||||| || ||||| || || || || |||||||||||||| ||||||  |     ||| | | ||||   | | |||  | | | | | |  ||  |  |         |||  ||| ||                                                           
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttt-tagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 5'ss of exon 12
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgt--tagttttaaatctctaccaggaaat---aattcatactatgtgta---------ggctgtgaaataaccatctgatatttag--------------
  || ||||||||||||| ||||| || || || || ||||| || ||||||||| |||||||||| || || ||||| |||||||| ||||| ||||||||     || | ||| ||||     | |    |  |  | |  |||| |          | | |||   ||| || | || |  |               
GTTGCGAGATATCATGCAGTTTGGCAGTAGTAACACTGCTGTATTTTTTAAAATGCGAGTCGCTGGAGTCCTACATATTTTTCAGTTCGAAACAAAGCAGgtatctattcttaatgtctatggtcatactcaagcttctgcggtgtggatttaattttagttatgagtcaacaatttaatgtaaaatccctttgaaacag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S364_50V6.1 (Physcomitrella patens), 5'ss of exon 13
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaa--ataattcatactatgtgtaggctgtgaaataaccatctgatatttag-----------
|||| | || || ||||||||||| |||||||| || || || || || |||||| | || || ||||| || ||||| ||||||||||| ||||||||||||| |||   | ||  | |  |     || ||   | |   | ||   | |   | |   || |    |||             
ACTGCGCGACATTATGCAATTTGGTAGCAGCAACACAGCCGTCTTTTTCAAAATGCGTGTAGCGGGTGTACTGCATATTTTTCAGTTTGAGACTAAGCAGgttattttcgtacctagatcttgctttgtacttgcaaatccctatattattttggagatttatttttggtttgtcttgtgagcag

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ30174 (Selaginella moellendorffii), 5'ss of exon 11
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag
 |||||||| |||||||||||||| || ||||||||||| || || ||||||||| | || || || ||| | || || ||||||||||||||||| |||||  || ||       | ||  | | |  |||   |||  | |  |  |                       
GCTGAGAGACATCATGCAATTTGGAAGTAGCAATACCGCAGTGTTTTTTAAAATGCGTGTGGCGGGAGTTTTGCACATTTTTCAGTTTGAAACTAAACAGgt--gtctttgtggctttccgtgtagttcttc--tctaaatttctgtcgcag--------------------

upper sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ06058 (Selaginella moellendorffii), 5'ss of exon 11
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggctgtgaaataaccatctgatatttag
 || ||||| |||||||||||||| || ||||||||||| || || ||||||||| | || || || ||| | || || ||||||||||||||||| |||||  |||||       | ||  | | |  |||   |||  | |  |  |                       
GCTTAGAGACATCATGCAATTTGGAAGTAGCAATACCGCAGTGTTTTTTAAAATGCGTGTGGCGGGAGTTTTGCACATTTTTCAGTTTGAAACTAAACAGgt--gtttttgtggctttccgtgtagttcttc--tctaaatttctgtcgcag--------------------

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|58671897|gb|CK060583.1|CK060583
EST:     AAATGAGAGTCGCTGGTGTTCTTCATATCTCCCAGCTTGAAACTAAGCAG                         GGCGAGGAAATATGTGTAGCACTTCAGACGCATATCAATGATGTGATGCTC
genomic: AAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagtttta ... tgatatttagGGCGAGGAAATATGTGTAGCACTTCAGACGCATATCAATGATGTGATGCTC