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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaactagctcacattttgatttaccgtgtcgatctcgatggtgtcttgttatcgggcacaacgaaccaaaacttgctctaaattgagattggtgcctaattatgtttgtcaatagaaagtgcatatattttgaagctagatttgtgactgtttgagcgtatgtactgcatgtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGGGGAACGCGGCGACCGGGTTCTTCGTCATCTTCGCGGTGATCGCCGGAGT

Basic information

species Oryza sativa
transcript LOC_Os01g50440.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g50440.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G057283_T01 (Zea mays), 3'ss of exon 1
gtaaaactagctcacattttgatttaccgtgtcgatctcgatggtgtcttgttatcgggcacaacgaaccaaaacttgctc-taaattgagattggtgcctaattatgtttgtcaatagaaagtgcatatattttgaagctagatttgtgactgtttgagcgtatgtactgcatgtacg-tgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGGGGAACGCGGCGACCGGGTTCTTCGTCATCTTCGCGGTGATCGCCGGAGT
                                                                 | | |||  ||  ||  ||     ||||  ||| |  | || |||  |     |   || | ||| | ||  |   |    | ||  |   ||    | |      ||| || | || |||  ||||  ||  ||| |||||  ||||||||||||||||||||||  | || |||||||||||||||||||||||||||||||| ||||||||||| ||
-----------------------------------------------------------------gtaacaatgctgacttataggagtagatcagtggc--agtaggttcat-----gccggt-cgtatttctttgactgatgcatatgcatacctgctgctgtactgcacatatatgatgcagGCGCCGGCCTGCAGCTCCCGGCTCACTTCTCCCCGATCTACTTCCCCGTCGGAAACGCGGCGACCGGGTTCTTCGTCATCTTCGCCGTGATCGCCGGGGT

upper sequence: LOC_Os01g50440.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G032594_T01 (Zea mays), 3'ss of exon 1
gtaaaactagctcacattttgatttaccgtgtcgatctcgatggtgtcttgttat-cgggcacaacgaaccaaaacttgctctaaattgagattggtgcctaattatgtttgtcaatagaaagtgcatatattttgaagctagatttgtgactgtttga-gcgtatgtactgcatgtac---gtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGGGGAACGCGGCGACCGGGTTCTTCGTCATCTTCGCGGTGATCGCCGGAGT
                                                  || ||     | |  ||    ||  ||| |        |    ||||   |  | | ||   ||| ||   | || || || | ||        ||||   |||  ||| || ||| || ||||| |||    || |||  ||||  ||   || |||||  |||||||||||||| ||||||| || ||||||||||||||||||||||||||||||||||| ||||||||||| ||
--------------------------------------------------gtaatataaacgcttcgtttaaatgctttcgtccgtcag---ctggttattggtaaggtaactcagta---actgtatgtagtatgt-----tctttggcgctgcatgacgcatatata-tgcatatactatatgcagGCACCGGCCTGCACCTCCCGGCTCACTTCTCCCCGATCAACTTCCCCATCGGGAACGCGGCGACCGGGTTCTTCGTCATCTTCGCCGTGATCGCCGGGGT
















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|88339665|gb|CI660381.1|CI660381
EST:     GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCG                         GTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
genomic: GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCGgtaaaactag ... gtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
EST: gi|88581058|gb|CI698030.1|CI698030
EST:     GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCG                         GTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
genomic: GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCGgtaaaactag ... gtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
EST: gi|88423562|gb|CI579274.1|CI579274
EST:     GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCG                         GTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
genomic: GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCGgtaaaactag ... gtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
EST: gi|86903578|gb|CI300432.1|CI300432
EST:     GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCG                         GTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
genomic: GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCGgtaaaactag ... gtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
EST: gi|95100851|gb|CI692569.1|CI692569
EST:     GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCG                         GTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
genomic: GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCGgtaaaactag ... gtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
EST: gi|5038579|gb|AU070689.1|AU070689
EST:     GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCG                         GTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG
genomic: GGTCGGCGGCTGGGCCATCAACCACGCCATCCACACCGGCTACTTCATCGgtaaaactag ... gtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttgaagctagatttgtgactgtttgagcgtatgtactgcatgtacgtgtagGTTCCGGGATGGCGCTGCCGGCGAACTTCTCCCCGATCTACTTCCCGATGGGGAACGCGGCGACCGGGTTCTTCGTCATCTTCGCGGTGATCGCCGGAGT
           tagattt  TA-rich tract