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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaaatgtttgacttaggacaaacctaaaatgacgagtaatttaaaacagggggaggacactacttctaaatgtgtattatttccttctttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATGGGCACATCTCCCTTACAGACTTCGATTTGTCTTGTCTAACATCTTGCAG

Basic information

species Oryza sativa
transcript LOC_Os12g01140.5
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g01140.5 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G001457_T02 (Zea mays), 3'ss of exon 16
-----ttaaaatgtttgacttaggacaaacctaaaatgacgagtaatttaaaacagggggaggacactacttctaaatgtgtattatttccttctttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATGGGCACATCTCCCTTACAGACTTCGATTTGTCTTGTCTAACATCTTGCAG
        ||| | |   | | | ||  |   |            | |  |||   | |  |  ||||| |||| |  || | | ||  | || ||| |  ||||||||||| ||| |||||||||| |||||||| || ||||||||||||||||||||||| ||  | |||||||| |||||||||||  | ||||| ||| |
aaggggggaaagggtc--ccttgcacttattcatcgcattttaccagt-gaaatttgagatgttcactatttctta--gtatttgatcccttttttttttctcagGTATAATCTACAGAGACTTAAAGCCAGAGAACATTTTACTTCATAGAGATGGGCACATTTCATTGACAGACTTTGATTTGTCTTGCTTGACATCCTGCCG
















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|29670089|gb|CB666364.1|CB666364
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|86908120|gb|CI300633.1|CI300633
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|29622723|gb|CB627734.1|CB627734
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|29672018|gb|CB668293.1|CB668293
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAAAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|87007902|gb|CI296880.1|CI296880
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|27334351|gb|CA882802.1|CA882802
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|33680724|gb|CF308963.1|CF308963
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
EST: gi|29641400|gb|CB646407.1|CB646407
EST:     GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAG                         GTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG
genomic: GTTCTATGCTGCCGAAGTGGTTGTTGCACTAGAATACCTACATTGCCAAGgtacatatac ... ttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacagggggaggacactacttctaaatgtgtattatttccttctttgtcttcagGTATAATATACCGAGACTTAAAACCAGAGAATATCTTACTTCATAGAGATGGGCACATCTCCCTTACAGACTTCGATTTGTCTTGTCTAACATCTTGCAG
                    ttctaaa  putative branch site (score: 2)
                               tattatttccttcttt  putative PPT
                       taaatgtgtattattt  TA-rich tract