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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcttctagaccttttagccaatggaaccatttcttttttttcctcccctttgaaaatataagcttccctggttctgatgttttttgcttcatctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTCATGATTCATACATTCTTCCTGATGTATCATTCAGCGACCACAGTCCAAT

Basic information

species Oryza sativa
transcript LOC_Os01g58690.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g58690.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA02G34700.1 (Glycine max), 3'ss of exon 11
ttcttctagaccttttagccaatggaaccatttcttttttttcctcccctttgaaaatataagcttccctggttctgatgttt-tttgcttca---tctaa---cagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTCATGATTCATACATTCTTCCTGATGTATCATTCAGCGACCACAGTCCAAT
  ||  || |    |||      |   |  |||||   ||||  |  ||||| |    |    | | | | |||||   |||  |||| ||||   | |||   |||| |||||  | || || || ||||  || ||||| ||| | ||||| ||||| |||||||||||||||||||||||  |    || || ||  |||| ||
--ctaataaaatacttaa-----gttcctttttctcagttttgattgcctttcatgtaaacttccttctttgttctctcgttgatttgtttcaaaatttaaaaacagGGTGGCGTCTTGACTATTTCCTTGTCTCAGAATCCATTGCTGACAAAGTTCACGATTCATACATTCTTCCTGATGTTACCGGTAGTGATCATTGTCCTAT
















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|88265285|gb|CI369059.1|CI369059
EST:     GCTTTCGG-TATACCTTCTGGGGTGAAAATCAGGCGCATAACCAACAAAG                         G-TGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: GCTGTCGGCTATACCTTCTGGGGTGAAAATCA-GCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|86420470|gb|CI056459.1|CI056459
EST:     TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|66928154|gb|CX115002.1|CX115002
EST:     TGCTGTCGGCTATACCTTCTGGGGTG-AAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|8528070|gb|AU092885.1|AU092885
EST:     TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|86536931|gb|CI177137.1|CI177137
EST:     TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTT
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGA-TTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTT
EST: gi|88267158|gb|CI379093.1|CI379093
EST:     TTCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|88481861|gb|CI419132.1|CI419132
EST:     TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|86430432|gb|CI082855.1|CI082855
EST:     TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATGACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|86842271|gb|CI335201.1|CI335201
EST:     CTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: CTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
EST: gi|88835940|gb|CI371045.1|CI371045
EST:     TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAG                         GTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC
genomic: TGCTGTCGGCTATACCTTCTGGGGTGAAAATCAGCGCATAACCAACAAAGgtcagtacat ... catctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccctttgaaaatataagcttccctggttctgatgttttttgcttcatctaacagGTTGGCGATTAGATTACTTTCTTGCGTCGGAATCTATTACCGACAAGGTTCATGATTCATACATTCTTCCTGATGTATCATTCAGCGACCACAGTCCAAT
                           ttctgat  putative branch site (score: 3)
                                   ttttttgcttcatct  CT-rich tract
     ttgaaaatataa  TA-rich tract