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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaggaagtacttattaatatgatgattcgttactacctacttaattgagctattttaatcctactactgactgactaattaatttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTACCAGAC

Basic information

species Oryza sativa
transcript LOC_Os11g03230.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03230.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G143971_T01 (Zea mays), 3'ss of exon 1
-----------------ggaggaagtacttattaatatgatgattcgttactacctacttaattgagctattttaatcctac-tactgactgactaattaa--tttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTACCAGAC
                 |   | | | |  | || | | ||||      |||   |  ||  |||  ||||  |     ||  ||  || | |  |   ||  ||||| ||||| || ||||  | || ||||||||||| ||||||||||  || || || || ||||| |||||  ||||||| |||||||||||||| |  || || ||||     |
gtatatatgtgtggtttgacagtactgcacactactgtaatgagagcaaact--tttgtttgttgctctatagtctatatatatatggattaaggagcaaacttttgtttgttgctgcagGTAAAGCCCGGGCTGAGCTCATACGCTGGACAACCCCAAGAGGCTGCAAATTCCATGCTGCCTCTTCTTGACAAGGCCAAGAGTGTCGTCCCTAAACAGC

upper sequence: LOC_Os11g03230.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G006762_T01 (Zea mays), 3'ss of exon 1
ggaggaagtacttattaatatgatgattcgttactacctacttaattgagctattttaatcctac-tactgactgactaattaa--tttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTACCAGAC
            |||  ||||| || || |     | | |  |  |  |  |||  |     ||  ||  || | |  |   ||  ||||| ||||| || ||||| | || ||||||||||| |||||||||| ||| || || || ||||| |||||  ||||||| |||||||||||||| | ||  || ||||     |
-----------gtatatatatg-tggtttgacggcatcgaggtgttctatatatagtctatatatatatggattaaggagcaaacttttgtttgttgctgcagGTGAAGCCCGGGCTGAGCTCATACGCTGGACATCCCCAAGAGGCTGCAAATTCCATGCTGCCTCTTCTTGACAAGGCCAAGAGCGCCGTCCCTAAACAGC
















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|58682846|gb|CK071533.1|CK071533
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACGACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTAAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACGACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|38479989|gb|CF964078.1|CF964078
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACGACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTAAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACGACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
EST: gi|4715905|gb|AU057021.1|AU057021
EST:     ACAAGCTGGACCTCCTCAAGGTCGGCGACGACATCGAGCTCTTCGCTAAG                         GTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC
genomic: ACAAGCTGGACCTCCTCAAGGTCGGCGACGACATCGAGCTCTTCGCTAAGgtaaccacat ... gttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagctattttaatcctactactgactgactaattaatttgtgtgttgttgtagGTGGATCCTGGGCTGAGCTCCTACGCTGGACGTCCTCAGGATGCCGCAAACTCCATATTGCCTCTGCTTGACAAGGCCAACACCGTTGTTCCTACCAGAC
                           tgactaattaattt  TA-rich tract