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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaaattcctgtacgtttattttctttctttattggaagttttgatgatttatttatgtgcttatatataccgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATTTTCACTAAAGTCATGATTTTATTTGCTACCCAGGGTATTTCATGTCAAT

Basic information

species Oryza sativa
transcript LOC_Os01g74460.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g74460.1 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G179732_T02 (Zea mays), 3'ss of exon 7
---------------gtatgtaaattcctgt-acgtttattttctttctttattggaagttttgatgatttatttatgtgcttatatataccgacacagGCAGTACCATCACTGTTGGGGAGATATG---AGGGATTAGGTTTGTA-------TAACATTTTCACTAAAGTCATGATTTTATTTGCTACCCAGGGTATTTCATGTCAAT
               || |||||   | ||| | |  ||| ||   | ||| |||      ||||   ||| |||   || |||  | ||||||||||||||||||||||  |||||||||| | |     |||  || ||||||        | |||||||| |   | |  || |  | |||  || |     | | | |||     
gtgatatgttgtcctgtgtgtaataacttgttatgcctatgttacattttttttg------ttgaaagttttttttgatg-ttacttgtaccgacacagGCAGTACCATCGTTGTTGGGGAGGTGTATGAGGGGGCTAAGTTTGTCGCACTTTTGACATTTTCTCAGGAATGGTGCTCCTTTTTTTTATC-----TGTCTGATG-----
















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|29665848|gb|CB662123.1|CB662123
EST:     GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
EST: gi|88503388|gb|CI430894.1|CI430894
EST:     GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
EST: gi|88487956|gb|CI425227.1|CI425227
EST:     GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
EST: gi|86486002|gb|CI128635.1|CI128635
EST:     GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
EST: gi|87029236|gb|CI276504.1|CI276504
EST:     GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
EST: gi|88997559|gb|CI390225.1|CI390225
EST:     GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
EST: gi|86861206|gb|CI326645.1|CI326645
EST:     GAAATTTTCGTATACGGAGAAACCACCCTTTCCTGGTGATATATTGTCTT                         GCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT
genomic: GAAATTTTCGTATACGGAGAAAGCACCCTTTCCTGGTGATATATTGTCTTgtatgtaaat ... accgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctttattggaagttttgatgatttatttatgtgcttatatataccgacacagGCAGTACCATCACTGTTGGGGAGATATGAGGGATTAGGTTTGTATAACATTTTCACTAAAGTCATGATTTTATTTGCTACCCAGGGTATTTCATGTCAAT
               ttttgat  putative branch site (score: 4)
                       atttatttatgtgctt  TA-rich tract