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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGGTGTTGCGAACTACTTGAAAGGACTTATGCTGATCTTGTGTTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagagttacagactactttttcttcatttcaatgtcacaatcaaacttcattaatttcatgaaaagagaagaactccgacattgacagcttactc...

Basic information

species Oryza sativa
transcript LOC_Os04g55940.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g55940.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G143356_T02 (Zea mays), 5'ss of exon 12
GATGGTGTTGCGAACTACTTGAAAGGACTTATGCTGATCTTGTGTTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagagt-tacaga-ctactttttcttcatttcaatgtcacaatcaaacttcattaatttcatgaaaa-gagaagaactccgacattgacagcttactc-
|||||   ||||||||||||||||||||||||||||||| | ||||||||||||||||| ||||||||||| |||||||||||||||||||| ||| |||||  | | || |  || |    ||| ||   | | ||   |    | ||  || | || ||  |   |  ||||||  |  | |||    |||  || 
GATGGCACTGCGAACTACTTGAAAGGACTTATGCTGATCCTATGTTATCTAATAGTTGCTGCCAGTTTCTTTGTTCACGTTGATCCACAATCAAgtgagtaggatcttcatagttagtccccctttatgctattttccttactccagttagtttagttaatttacttgtcaagaacctc--ccttgt--acttgttct

upper sequence: LOC_Os04g55940.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G040017_T01 (Zea mays), 5'ss of exon 11
GATGGTGTTGCGAACTACTTGAAAGGACTTATGCTGATCTTGTGTTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagagtta-cagactactttttcttcatttcaatgtcacaatcaaacttcattaatttcatgaaaagagaagaactccgacattgacagcttactc
|||||   ||||||||||||||||||||||||||||||| | ||||||||||||||||| ||||||||||| ||||| |||||||||||||| ||| |||||  ||  || |||        || ||   | | ||   ||   | ||  || | || ||         |  | ||   | |  || | |   | 
GATGGGACTGCGAACTACTTGAAAGGACTTATGCTGATCCTATGTTATCTAATAGTTGCTGCCAGTTTCTTTGTTCATGTTGATCCACAATCAAgtgagtaggattttcatacttagacccgtttatgctattttccttattccagttagtttagttaatttgcttgtcaagaatcttccttgtactgttcgtt-
















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|88381904|gb|CI530710.1|CI530710
EST:     TTATGTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|86484481|gb|CI127114.1|CI127114
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|88906701|gb|CI375773.1|CI375773
EST:     TTATCTAATATTTGCCGCCACTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|88504390|gb|CI431896.1|CI431896
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|88254126|gb|CI352752.1|CI352752
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|88262940|gb|CI366566.1|CI366566
EST:     TTATCTAATA-TTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|88384803|gb|CI556681.1|CI556681
EST:     AGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: AGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|66923908|gb|CX110756.1|CX110756
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACC
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACC
EST: gi|86832984|gb|CI333583.1|CI333583
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|86258579|gb|CI064932.1|CI064932
EST:     TTATCTAATAGTTGCCGCCAGTTTCCTCGTCCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|33381504|gb|CF196847.1|CF196847
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|88321436|gb|CI535388.1|CI535388
EST:     CTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: CTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|86863308|gb|CI344966.1|CI344966
EST:     TTATCTAATAG-TGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
EST: gi|58669001|gb|CK057687.1|CK057687
EST:     TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCA                         GCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA
genomic: TTATCTAATAGTTGCCGCCAGTTTCTTCGTTCACGTTGATCCACAATCCAgtaagtagag ... ttttttgcagGCGATGATTGATGCCACGGACACTGTAATTATTGTACCAAATACCCTTGAA