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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttttgatgactccatggtttctttatttgtgtttttgtttatttaacaagtactgtaataatgcttcaatcaaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCCTAGTTACTGGATGCAGACTCTTTTCGGTGAATCTAGCGGTGCTATGTTT

Basic information

species Oryza sativa
transcript LOC_Os11g03730.3
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g03730.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 14
----------gtta-gttttgatgact-ccatggtttctttatttgt--gtttttgtttatttaacaagtactgtaataatgcttcaatcaaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCCTAGTTACTGGATGCAGACTCTTTTCGGTGAATCTAGCGGTGCTATGTTT
             |  |    || | |  ||||    ||   || ||    | | | ||  | |   |     ||||   || |   || || |||||||||||||||||||||| || || || ||||||||||| || || || ||||| ||||||||||||||||| |||||| | || ||||| ||||||||||| 
ccatatatacaccacatacaaattattatcatgcaccctgctttcgttcactctagcttcatcactcatcgtggtaactctgttgggatgaatcaatcagGTGGAACCCAGACGCAATCGTCTTCAACTCCTGGCAGCATTACGGCACTCCCAGTTACTGGATGCAGACGCTTTTCCGCGAGTCTAGTGGTGCTATGTTC

upper sequence: LOC_Os11g03730.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G393002_T01 (Zea mays), 3'ss of exon 24
gttagttttgatgactccatggtttctttatttgtgtttttgtttattt------aacaagtact--gtaataatgcttcaatcaaacaat-cagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCCTAGTTACTGGATGCAGACTCTTTTCGGTGAATCTAGCGGTGCTATGTTT
|||||| |  || | |   |  |   || | ||||||||   ||| ||       | |  ||| |  |||||  || | |    ||| ||   |||||||||||||||| ||| || || ||| ||||||| || || || |||||||| |||||||||||||  |||||| | || || || || || ||| ||
gttagtataaattaatggcttctgctttcacttgtgtttccttttgttcttgttgatctggtattcagtaattgtgttacgggaaaaaaaaatagGTGGAACCCAGACGTCATCGTCTTCAACACCTGGCAGCATTACGGGACTCCTAGCTACTGGATGCAGAAGCTTTTCCGCGAGTCCAGTGGCGCCATGGTT

upper sequence: LOC_Os11g03730.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G006130_T05 (Zea mays), 3'ss of exon 14
gttagttttgatgactccatggtttctttatttgtgttttt---gtttatttaacaagtactgtaataatgcttcaatcaaac---aatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCCTAGTTACTGGATGCAGACTCTTTTCGGTGAATCTAGCGGTGCTATGTTT
|||||| ||  ||  |   |     || || ||||  ||||   |||  | ||||   | |  | ||  || ||| | ||||     |||||||||||||| ||||| ||||| || |||||||||||||| |||||||||||||| ||||||||||||||  ||||| | || || ||||| || ||| ||
gttagtattcttggttttttttaccctctacttgttcttttcccgttgctctaacgc-tgcgatgattttgtttcgaacaaaacgagatcagGTGGAACCCGGACGCTATTGTCTTCAACTCCTGGCAACACTATGGAACTCCTAGCTACTGGATGCAGACGATTTTCCGCGAGTCAAGCGGCGCCATGATT

upper sequence: LOC_Os11g03730.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G006130_T01 (Zea mays), 3'ss of exon 15
gttagttttgatgactccatggt-ttctttatttgtgttttt---gtttatttaacaagtactgtaataatgcttcaatcaaac---aatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCCTAGTTACTGGATGCAGACTCTTTTCGGTGAATCTAGCGGTGCTATGTTT
|||||| ||  ||  |   |  |   || || ||||  ||||   |||  | ||||   | |  | ||  || ||| | ||||     |||||||||||||| ||||| || || || ||||||||||| || |||||||||||||| ||||||||||||||  ||||| | || || |||||||| ||| | 
gttagtattcttggtttttttttaccctctacttgttcttttcccgttgctctaacgc-tgcgatgattttgtttcgaacaaaacgagatcagGTGGAACCCGGACGCTATCGTCTTCAACTCCTGGCAGCACTATGGAACTCCTAGCTACTGGATGCAGACGATTTTCCGCGAGTCAAGCGGTGCCATGATC

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|29665627|gb|CB661902.1|CB661902
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATACGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29636384|gb|CB641393.1|CB641393
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATACGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29674665|gb|CB670940.1|CB670940
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATACGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29677794|gb|CB674069.1|CB674069
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATACGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|87021358|gb|CI295417.1|CI295417
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATACGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29627661|gb|CB632672.1|CB632672
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29624426|gb|CB629437.1|CB629437
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|38476158|gb|CF960291.1|CF960291
EST:     CAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: CAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|33795281|gb|CF323512.1|CF323512
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAA
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAA
EST: gi|29646542|gb|CB651549.1|CB651549
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29628284|gb|CB633295.1|CB633295
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|86905528|gb|CI285491.1|CI285491
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29681803|gb|CB678078.1|CB678078
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29624428|gb|CB629439.1|CB629439
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29627934|gb|CB632945.1|CB632945
EST:     GTTCAGATGGCAAGTTATGCACCACTGTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|29644766|gb|CB649773.1|CB649773
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|86851229|gb|CI312630.1|CI312630
EST:     ATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATC-AAC                         GTTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTC
genomic: ATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagG-TGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTC
EST: gi|29638132|gb|CB643141.1|CB643141
EST:     GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
genomic: GTTCAGATGGCAAGTTATGCACCACTCTTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC
EST: gi|86481297|gb|CI123930.1|CI123930
EST:     TTCGTGAACAACAATGATCAAAC                         GTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATACGGAACTCC
genomic: TTCGTGAACAACAATGATCAAACgttagttttg ... aaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtttttgtttatttaacaagtactgtaataatgcttcaatcaaacaatcagGTGGAACCCAGACGCCATTGTATTTAACTCCTGGCAACAATATGGAACTCCTAGTTACTGGATGCAGACTCTTTTCGGTGAATCTAGCGGTGCTATGTTT
              atttaac  putative branch site (score: 3)
     tttttgtttatttaac  TA-rich tract