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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCACCAGTTCAGGCAACGACGATATATAAGGCCATAAAGGACAAAGGCCTTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgagtacctcttgtctttatctttgcaacaccaaacttatatattagttagtaatgtatcaggttgagtatttcctaccgaattgttttttttt...

Basic information

species Oryza sativa
transcript LOC_Os06g11190.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g11190.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G000231_T01 (Zea mays), 5'ss of exon 14
GTCACCAGTTCAGGCAACGACGATATATAAGGCCATAAAGGACAAAGGCCTTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgagtacctcttgtctttatctttgcaacaccaaacttatatattagttagtaatgtatcaggttgagtatttcctaccgaattgttttttttt----------
 ||||||| ||||||||| |  ||||| || |||||||||||||| |||||||| ||||||||||| ||||| ||||||||||||||||| ||||||||||||    ||  ||  |||      ||| ||    ||||  |  |   || | || | || | ||    |  |   ||| | ||   || |   |  | ||          
ATCACCAGATCAGGCAACAAAAATATACAAAGCCATAAAGGACAAGGGCCTTCCCGTTGCTTTGGTTGAGTACGAAGGGGAACAACATGGCTTCCGCAAGgtccagtgatcactcctta-----atcctta-ggcaccgcatcttcttagt-gtcactagtata---agcaggaaattacttagttaactacctaatgttaaaaatcact

upper sequence: LOC_Os06g11190.1 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv18s0001g11150.t01 (Vitis vinifera), 5'ss of exon 17
GTCACCAGTTCAGGCAACGACGATATATAAGGCCATAAAGGACAAAGGCCTTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgagtacctcttgtctttatctttgcaacaccaaacttatatattagttagtaat----gtatcaggttgagtatttcctaccgaattgttttttttt
  | ||||  || ||    |  || ||   |||  | ||| | |||||  | ||||||||| | ||  |||||||||| |||||||||||||| ||||||||   |   | |  |  | | ||||   |   | ||| ||| |||||| |  |   | ||     |||  |    ||  | ||  |||  |             
ACCCCCAGAGCAAGCTCGTAAAATCTACCTGGCACTGAAGAAAAAAGGTTTGCCTGTTGCTCTTGTGCAGTATGAAGGAGAACAACATGGTTTTCGCAAGgt---atttgcaatttctatgtttaatct--aagcacgaaatttatatttatgagggaaacattagtactaatcagataactttttacacag------------
















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|88263099|gb|CI366873.1|CI366873
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACGTGTTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|88264886|gb|CI367537.1|CI367537
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|88253789|gb|CI352415.1|CI352415
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|87026895|gb|CI259548.1|CI259548
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|29629333|gb|CB634344.1|CB634344
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|29625693|gb|CB630704.1|CB630704
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|88852504|gb|CI374272.1|CI374272
EST:     TCCTGTTGCTTTGGTCGAGTATGAAGGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGACCAGCAGATGGTGTTCTTCGCTAGA
genomic: TCCTGTTGCTTTGGTCGAGTATGAA-GGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|88250962|gb|CI349192.1|CI349192
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTGTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|88297249|gb|CI545339.1|CI545339
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|86865372|gb|CI330883.1|CI330883
EST:     TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGNTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
EST: gi|88272823|gb|CI386083.1|CI386083
EST:     TTCCTCTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAG                         GCCGAGAACATCAAG-TTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA
genomic: TTCCTGTTGCTTTGGTCGAGTATGAAGGGGAACAACATGGTTTCCGCAAGgtctgacgag ... tctggagcagGCCGAGAACATCAAGTTTACCTTGGAGCAGCAGATGGTGTTCTTCGCTAGA