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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtgcactttctggtaatgttttgttacctaaccaagtgatgcaccattactgaagttgtaaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGGAACCGATTTTGTATGTTCAATGATGACGTGCAG

Basic information

species Oryza sativa
transcript LOC_Os10g35960.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g35960.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G085747_T02 (Zea mays), 3'ss of exon 7
-----------------------gttcgtgc-actttctggtaatgttttgttacctaacc---aagtgatgcaccattactgaagttgtaaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGGAACCGATTTTGTATGTTCAATGATGACGTGCAG
                        || || | ||  |  ||   |    |  ||  |   |   || |  ||| || || |||||||  |||| | |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||||||||| |||
cttctttgcgttccttacaaataatttgtaccacactaggggcttcccctactattttcgctcaaaatactgctccctttctgaagtgataaaatcacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAGACTCTTCAGAGGTATCGGAACCGATTTTGCATGTTCAATGATGACGTACAG

upper sequence: LOC_Os10g35960.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G085747_T05 (Zea mays), 3'ss of exon 6
------------------------------------------------------------------------------------gttcgtgc-actttctggtaatgttttgttacctaacc---aagtgatgcaccattactgaagttgtaaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGGAACCGATTTTGTATGTTCAATGATGACGTGCAG
                                                                                     || || | ||  |  ||   |    |  ||  |   |   || |  ||| || || |||||||  |||| | |||||||||||||||||||||||||||||||||||| ||||||                                             
aactgaggtcttctgggcctccccttttgctcttttatttttctcaagagaaacctgtttgcttctttgcgttccttacaaataatttgtaccacactagGGGCTTCCCCTACTATTTTCGCTCAAAATACTGCTCCCTTTCTGAAGTGATAAAATCACAGTTTGAAGACTTCCAAATGAAATGGGCCTTTGAGACTCTT---------------------------------------------

upper sequence: LOC_Os10g35960.2 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G085747_T04 (Zea mays), 3'ss of exon 7
-----------------------gttcgtgc-actttctggtaatgttttgttacctaacc---aagtgatgcaccattactgaagttgtaaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGGAACCGATTTTGTATGTTCAATGATGACGTGCAG----------------
                        || || | ||  |  ||   |    |  ||  |   |   || |  ||| || || |||||||  |||| | |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||||||||| |||                
cttctttgcgttccttacaaataatttgtaccacactaggggcttcccctactattttcgctcaaaatactgctccctttctgaagtgataaaatcacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAGACTCTTCAGAGGTATCGGAACCGATTTTGCATGTTCAATGATGACGTACAGGTATCCTGATTCTTAA

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|58687567|gb|CK076254.1|CK076254
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|58673493|gb|CK062179.1|CK062179
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|58665242|gb|CK053928.1|CK053928
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|58694574|gb|CK083261.1|CK083261
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|88414501|gb|CI698600.1|CI698600
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAA
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAA
EST: gi|58659006|gb|CK047686.1|CK047686
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAGGGGGCCTTTGAAACTCTTCAGAGGTATCGT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|29664101|gb|CB660376.1|CB660376
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|29671880|gb|CB668155.1|CB668155
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCNCAA-TGAAATGGGCCTTTGAAACTCTTC
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTC-CAAATGAAATGGGCCTTTGAAACTCTTC
EST: gi|29624067|gb|CB629078.1|CB629078
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|29656255|gb|CB652530.1|CB652530
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|29687359|gb|CB683634.1|CB683634
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|88342733|gb|CI677737.1|CI677737
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAA
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAA
EST: gi|88386729|gb|CI682882.1|CI682882
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTT
EST: gi|58604291|gb|CK014819.1|CK014819
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGT
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|29624065|gb|CB629076.1|CB629076
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
EST: gi|29678813|gb|CB675088.1|CB675088
EST:     ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAG                         TTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG
genomic: ATGAATTCATGGAAGCTGTTCATGCACGTTGGCCGAAAGCAGTTGTGCAGgttcgtgcac ... aaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgttttgttacctaaccaagtgatgcaccattactgaagttgtaaagttacagTTTGAAGACTTCCAAATGAAATGGGCCTTTGAAACTCTTCAGAGGTATCGGAACCGATTTTGTATGTTCAATGATGACGTGCAG
           acctaac  putative branch site (score: 2)
                                            taaagtta  TA-rich tract