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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttgtttcactagatttttgttcagtcgttttgttgtggctttacttcagtagtcatctcagttcaaacttacaatctctcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA

Basic information

species Oryza sativa
transcript LOC_Os03g02756.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 2
gtgttgtttcactagatttttgttcagtcgttttgttgtggctttacttcagtagtcat-ctcagttcaaacttacaatctctcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA
     || |   |   |  || |||||| |    ||| ||    || |||   ||| |  |||||||| |||     |||   ||| | ||||||||| || |||||||| |||||||| |||||||| || |||||||| ||||| |||||||||||||| || || || |||||
-----gtattgttcattcatttttcagtggagaagttatgcagatatttctagagtaaaactcagttctaac-----atcatgcttctatagTGTTTCCTCCCTGGCCTCATTTATGTCTAATCAGGAGACAAGTTTTGTGACATTAGGACAGCGTGTTCTTGCTAACCCGCTGAA

upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 37
gtgttgtttcactagatttttgttcagtcgttttgttgtggctttacttca--gtagtcatctcagttcaaacttacaatctctcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA
|| |    |   || ||  ||    ||| ||  | ||  | |||   ||    | | |  |  | ||  ||  |  |  |  || | | | ||||| || || || || || |||||||||||||| |||||||||||||| || || || ||||| ||| | || |||||| ||||
gtatgtgctgcttacatcctttgatagt-gtcattttcggacttggttttgctgcatttgtggctgtgtaacatctctgttactgtat-gcagTGTCTCATCTCTAGCGTCATTTATGTCCAATCAAGAAACTAGTTTTGTGACTTTAGGGCAGCGAGTTTTAGCAAATCCATTGAA

upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 39
gtgttgtttcactagatttttgttcagtcgttttgttgtggctttacttca--gtagtcatctcagttcaaacttacaatctctcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA
|| |    |   || ||  ||    ||| ||  | ||  | |||   ||    | | |  |  | ||  ||| |  |  |  || | | | ||||| || ||  | || || |||||||||||||| |||||||||||||| || ||||| ||||| ||| | || |||||| ||||
gtatgtgctgcttacatcctttgatagt-gtccttttcggacttggttttgctgcatttgtggctgtgtaaagtctctgttactgtgt-gcagTGTCTCATCTTTAGCATCATTTATGTCCAATCAAGAAACTAGTTTTGTGACTTTGGGGCAGCGAGTTTTAGCAAATCCATTGAA

upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 34
gtgttgtttcactagatttttgttcagtcgttttgttgtggctttacttcagtagtcatctcagttcaaacttacaatctctc-----ttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA
||  | || |||    |   |   || | |  |  ||||    | |||    || | || ||| ||  | || | ||  | |      ||||| ||||| |||||  | ||||  |||||||||||||| |||||||| ||||| ||  | || |||||||||||||| || ||  | ||
gtacttttccacatagtagcttagcacttgaatgcttgttttctgact--gataattatttca-ttttacctgataagttatacatgattttgcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA

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|300216075|gb|HO088701.1|HO088701
EST:     AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAG                         TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
genomic: AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAGgtgttgtttc ... tcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
EST: gi|88399969|gb|CI588273.1|CI588273
EST:     AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAG                         TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
genomic: AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAGgtgttgtttc ... tcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
EST: gi|33679231|gb|CF307470.1|CF307470
EST:     AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAG                         TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
genomic: AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAGgtgttgtttc ... tcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
EST: gi|29675246|gb|CB671521.1|CB671521
EST:     AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAG                         TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC
genomic: AAGCACAAGCCTTCAATTCTTGGTGTTAGAGAACACGTGTTCACGGGAAGgtgttgtttc ... tcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtggctttacttcagtagtcatctcagttcaaacttacaatctctcttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA
                                aacttac  putative branch site (score: 2)
                                         tctctcttttgt  putative PPT
      tttactt  TA-rich tract