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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTTATATCAATACTTCTTTGGAAACAAAAGCTCATGCTCATGAACTTGTACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgagaatggacattaattattgttcactacattaactcattttattttgtttactcttatccgttaatctttcag

Basic information

species Oryza sativa
transcript LOC_Os12g19304.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G142836_T01 (Zea mays), 5'ss of exon 2
TATTTATATCAATACTTCTTTGGAAACAAAAGCTCATGCTCATGAACTTGTACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgagaatggacattaattattgttcactacattaactcattttattttgtttactcttatccgttaatctttcag
|||||| || ||||||||  ||||||||||||||||||||||||||||||| ||||||||||| ||||| ||||| || |||||  |||||||| ||||||||  |||||| |||     ||   ||   || |  |   | | | || ||||    ||   |  |||| |       ||   ||||||  || ||| |  ||||                      
TATTTACATTAATACTTCGCTGGAAACAAAAGCTCATGCTCATGAACTTGTTCCTACAATAACTTGCACCTCTTCTAATGTTGTTCCAACTATACTACAGgtacctgttttgctt-----ctgagaat--tatctgagtttcatttgtattttacttatt--ctgtaatcaa-----gctttcttaact--ttctatatgctttag---------------------

upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA05G02710.1 (Glycine max), 5'ss of exon 3
TATTTATATCAATACTTCTTTGGAAACAAAAGCTCATGCTCATGAACTTGTACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgag---aatggacattaattattgttcactacattaactcattttattttgtttactcttatccgttaatctttcag
 || || || || |||   || || ||||| ||  |||||||||||||||| ||||||||||| || ||||| ||||| |||||    |||||  ||||||| ||| |  | |     |  |  |   ||     |    | ||||||  | |||    |    |   | |  ||         |||| | || |||  ||   |    | ||   |  || |  | |||
CATATACATTAACACTAAGTTAGAGACAAAGGCATATGCTCATGAACTTGTGCCTACAATAACCTGTACTTCATCAAATGTTGTCCAGACTATCCTACAGgttggtctgatacaaacttttttta--ttcctctgactttttaatggtcatatgaatgcatcacatgatgaccatcaccatgcccatttagtcctttccttaaataatatattggtccatatttatgcag

upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA17G13410.1 (Glycine max), 5'ss of exon 3
TATTTATATCAATACTTCTTTGGAAACAAAAGCTCATGCTCATGAACTTGTACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgag---aatggacattaattattgttcactacattaactcattttattttgtttac-tcttatccgttaatctttcag
 || || || || |||   || || ||||| ||  |||||||||| ||||| ||||||||||| || ||||| ||||| |||||    |||||  ||||||| |||    | |     |  |     |       |    | |||||   | |||    |    |   | |  ||     |   |||| |  |  |||||||   | |  | ||   |  || |  | |||
CATATACATTAACACTAAGTTAGAGACAAAGGCATATGCTCATGAGCTTGTGCCTACAATAACCTGTACTTCATCAAATGTTGTCCAGACTATCCTACAGgttggtcagatacaaactttttttgttcctctctgactttttaatggccatatgaatgcatcacatgatgaccatcaccaagcccatttagcc-ctttatttaaataatatattggtccatatttatgcag

upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G50210.1 (Arabidopsis thaliana), 5'ss of exon 3
TATTTATATCAATACTTCTTTGGAAACAAAAGCTCATGCTCATGAACTTGTACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgtttttcttgtctactacaaactctagccaaccatgaatggttttttgagaatggacattaattattgttcactacattaactcattttattttgtttactcttatccgttaatctttcag
| ||||||| ||||| |||||||| |||||||||  ||||||||| ||||||||||| || || |||||||| || || ||||||   || ||  | |||||  |    |||||||  | || ||| ||        |  |   |  ||||||    ||     ||  |||  | |   |   ||  ||| | | | |                             
TGTTTATATAAATACATCTTTGGAGACAAAAGCTTTTGCTCATGAGCTTGTACCTACCATTACTTGCACTTCATCTAATGTTGTACAGACGATTCTGCAGgtttg----tttcttgctttcttcaatctt-------cttttcttttttttttcttcatcttgcttttttaaagctatttctcttctctcttgtcaatag---------------------------

upper sequence: LOC_Os12g19304.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv17s0000g09490.t01 (Vitis vinifera), 5'ss of exon 3
TATTTATATCAATACTTCTTTGGAAACAAAAGCTCATGCTCATGAACTTGTACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgtttttcttgtctactacaaactctagccaac--catgaatggttttttgagaatggacattaattattgttcactacattaactca--ttttattttgtttactcttatccgttaatctttcag---------------------------------
| ||||||| || ||||| || || ||||||||  |||||||||||||||| || ||||| || || |||||||| || |||||   ||| ||  | ||||| ||| || |       | ||   || | ||  |  |  ||| | |      |||   |||    ||   |||| |    |   || |  ||  | | |      |   | || | |    |||||  |                                  
TGTTTATATAAACACTTCGTTAGAGACAAAAGCATATGCTCATGAACTTGTGCCAACAATTACCTGTACTTCTTCTAATGTTGTGCAAACCATTCTGCAGgttggtattatcaccagtttct-ttaattataatcttctgcatcatttagggcttgtctatgagttttg--tattatgtggtttcttgagccacctctcaagggagtggtttttcttcccccatcttaaatgcaagccccatgctttctttttccttcttgcag

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|33796673|gb|CF324204.1|CF324204
EST:     TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAG                         GCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT
genomic: TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgttt ... aatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT
EST: gi|58688229|gb|CK076916.1|CK076916
EST:     TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAG                         GCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT
genomic: TACCTACAATAACATGCACTTCTTCAAACGTTGTAGCAACTATATTACAGgtaggtgttt ... aatctttcagGCATTTGCCCAAATACCAGGTCTTAATGTCTGGTATGGCCCGGATTCTTAT