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

GATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaagacagctttacatgaactttcatttctgcatgcttccgcatttatttctgaagtcttcagatgaaaatttgccaacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcag

Basic information

species Oryza sativa
transcript LOC_Os10g41780.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G038487_T01 (Zea mays), 5'ss of exon 5
GATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag-acagctttacatgaactttcatttctgcatgcttccgcattta--tttctgaagtcttcagatgaaaatttgccaacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcag
|| || || ||||| ||||||  |||||||||||||||||| |||||||| || |||||||| ||||| || ||||| || ||||| ||||||||||||||||||      || |  | |  |          ||||    | | | | || |   |||| |||||   |  |      ||    | |       | ||                                            
GACGGAAGGCCTGGGTGTGTTCAGAACACATGTGCTCACAGGGCTTGCCCGCTGCATCTTGGTTCAGTGAACGAGGGTAGGATCCAGTGCCCTTACCATGgtaagtctcctactgtctgaattaggtcagagattctcggggttactgtatcttgttttcagaagtgcgcctacttgttttgtttaccctgtctgaatta-------------------------------------------

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G171390_T05 (Zea mays), 5'ss of exon 5
GATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaagacagctttacatgaactttcatttctgcatgcttccgcatttatttctgaagtcttcagatgaaaatttgccaacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcag
|| || || || || ||||||  ||||||||| || ||||| || ||||| || |||||||| ||||| || |||||||| ||||| |||||||||||||||||  ||  |            ||        ||  | | ||     |   |||  || |   || | ||  ||    ||| | | | |  | |    |                                        
GACGGAAGGCCCGGGTGTGTTCAGAACACATGCGCCCACAGGGCATGCCCGCTGCATCTTGGTTCAGTGAACGAGGGCAGGATCCAGTGCCCTTACCATGgtaattaagaag--------gcaaatcagtcgatcgacctactgaaaaaacaattaatgcacggttaacatataa---cgcctatatataataatcttcag---------------------------------------

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA13G03430.1 (Glycine max), 5'ss of exon 5
GATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaagacagctttacatgaactttcatttctgca-tgcttccgcatttatttctgaagtc--ttcagatgaaaatttgc------caacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcag------
|||||||  |||||||||||   |||||| ||||| || ||||| |||||||| || ||||| ||||| ||||||||  | |||||||| || ||||||||| ||     ||      | ||||  ||  || |  ||| ||  |      | |||  ||| |    |  || || || ||  |      ||||  | |||  ||  | |    | | || |  |  | |    ||||| |   ||         
GATGGGAAGCCTGGATGTGTGCAGAACACCTGTGCACATAGAGCCTGCCCTCTGCACCTTGGTTCAGTAAATGAGGGTCGTATCCAATGTCCCTACCATGgttagttgtcaccaaaacaaatga--ttatatcttagcaatgagttaaatgtaattgttgatgctaatgtaggtgtaatttcacattacacaacctacagat-ttatgtacactgaaattgacatactctaaaatttcaaatggttggatatcag

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA04G42840.1 (Glycine max), 5'ss of exon 5
GATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaagacagctttacatgaactttcatttctgcatgcttccgcatttatttctgaagtcttcagatgaaaatttgccaacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcag
|||||||  ||||| ||||||  |||||| ||||| |||||||| || ||||| || ||||| || || ||||||||  | ||||||||||||||||||||| ||   ||   |   |  ||||    || || |  ||   |   | | || || ||    ||   | ||||  || | | | ||  |||   |     | | | |  ||||                           
GATGGGAAGCCTGGGTGTGTTCAGAACACCTGTGCACACAGAGCATGTCCTCTACACCTTGGTTCGGTGAATGAGGGTCGTATCCAATGCCCTTACCATGgttagt--agttgg---tgaatgatgactctttacaccaacttaaggaaatttttgct----tcaatacatgattatatcctagcaatgagttat-----atgcactggttcat--------------------------

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 5'ss of exon 4
GATGGGAGACCTGGATGTGTTATGAACACATGTGCTCACAGAGCTTGCCCTCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaagacagctttacatgaactttcatttctgcatgcttccgcatttatttctgaagtct--tcagatgaaaatttgccaacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcag
||||||| ||||||||||||    ||||| || || || ||||| ||||||||||||||||| ||||| || |||||  | |||||||| |||||||||||| || ||          | || | |    |  | | | || ||    | | |   | || | |   |||  |   |||     ||   | | |  ||       |  | |   | ||||| |     |  || | ||||||
GATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTCTTCATCTTGGATCAGTAAACGAGGGTCGTATCCAATGTCCTTACCATGgttagtaagagggaaaggaaataagca--aaagtttacctgttttgctaataagaacagatgacaaatcaattagtaatgcataaagtaaaaaatatttgtttgctcatgtggaaatttttgtg---atggatgaacttcag

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|29673392|gb|CB669667.1|CB669667
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|29618942|gb|CB623954.1|CB623954
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|58591367|gb|CF989675.1|CF989675
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|58604859|gb|CK032892.1|CK032892
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|24208889|gb|AU225916.1|AU225916
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|29617556|gb|CB622568.1|CB622568
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|700022|gb|D46313.1|D46313
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|29671152|gb|CB667427.1|CB667427
EST:     GCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: GCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
EST: gi|58611249|gb|CK038961.1|CK038961
EST:     TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATG                         GTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA
genomic: TCTTCATCTTGGCTCAGTTAATGAGGGCAGAATCCAATGCCCTTACCATGgtaagaaaag ... taaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGA