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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactacgcatgtataattaaacacgaaatgctagctgctcatctttcttctcatcttgttgatgagatgagacgatcgatggagaggaattttgaaattgggtagtagtacctgtttgtttttcacttaattacttaattgtgttcgatttgattaacttttggagttgtttatgtatgcaatggatgaaatgcagGGTGATGCTGGTTGGATGGGGAGGCAACAACGGCACCACGCTCACGGCTGGTGTCATCGCCAACAGAGA

Basic information

species Oryza sativa
transcript LOC_Os10g22450.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g22450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G177461_T01 (Zea mays), 3'ss of exon 1
gtactacgcatgtataattaaacacgaaatgctagctgctcatctttcttctcatcttgttgatgagatgagacgatcgatggagaggaattttg-aaattgggtagtagtacctgtttgtttttcacttaattacttaattgtgttcgatttgattaacttttggagttgtttatgtatgcaatggatgaaatgcagGGTGATGCTGGTTGGATGGGGAGGCAACAACGGCACCACGCTCACGGCTGGTGTCATCGCCAACAGAGA
                                                                                ||   ||   |   | |||       | |  | ||  |     | ||   |  ||  |   ||  |  |  | |||  |    |       | |     ||| || |||  | | |||||||||||| || |||||||| ||||||||||| || ||||||||||| || || ||||||||||| ||
-------------------------------------------------------------------------------gtgcgtagacgtcgcgtaaaccccagcgaaccaactcatccgcctccatacatatatctg--tggatatggatcgatcgatcgatcatacgttgtgccgttgctattgatcga-tacagGGTGATGCTCGTAGGATGGGGCGGCAACAACGGGACAACGCTCACGGCCGGGGTGATCGCCAACAGGGA

upper sequence: LOC_Os10g22450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S55_204V6.1 (Physcomitrella patens), 3'ss of exon 1
gtactacgcatgtataattaaacacgaaatgctagctgctcatctttcttctcatcttgttgatgagatgagacgatcgatggagaggaattttgaaattgggtagtagtacctgtttgtttttcacttaattacttaattgtgt-tcgatttgattaacttttggagtt--gtttatgtatgcaatggatgaaatgcagGGTGATGCTGGTTGGATGGGGAGGCAACAACGGCACCACGCTCACGGCTGGTGTCATCGCCAACAGAGA
                                                                                                   |   |     | | |      | |  | | |  |||    || | |  |||  || | | |||    || |  | | |||| | |  ||       |||||  ||||||| || || ||||| |||||||||||  |||| |||||||||||| || ||||||||| |||
---------------------------------------------------------------------------------------------------tccatcactctccttacggcgtctgaattgacctaccagtttctttgccgacatggtgatcttgaaaagcttggctcatgt-ttcggtgtggcctttgcagAATGATGCTCGTCGGTTGGGGTGGCAACAACGGGTCCACTCTCACGGCTGGTATCCTCGCCAACAAAGA

upper sequence: LOC_Os10g22450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S267_10V6.1 (Physcomitrella patens), 3'ss of exon 1
gtactacgcatgtataattaaacacgaaatgctagctgctcatctttcttctcatcttgttgatgagatgagacgatcgatggagaggaattttgaaattgggtagtagtacctgtttgtttttcacttaattacttaattgtgttcgatttgattaacttttggagttgtttat-gtatgcaatggatgaaatgcagGGTGATGCTGGTTGGATGGGGAGGCAACAACGGCACCACGCTCACGGCTGGTGTCATCGCCAACAGAGA
                                                                                                    |     | |  |  |    ||| |     |  |  ||  |  |  | | |||||   |  |    | || |   | || ||   ||| | |  |||||  ||||||| ||||| ||||| |||||||||||  |||| |||||||||||| |  | || ||||||||
-------------------------------------------------------------------------------------------------cccgctccttggcgcgcgaacatttctggagaatgtctttcgtaatagtggttttgacacagatgaataattctgggttgtgtgtggtgggt-acctgcagAATGATGCTTGTTGGGTGGGGCGGCAACAACGGATCCACTCTCACGGCTGGTATTCTTGCTAACAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttcgatttgattaacttttggagttgtttatgtatgcaatggatgaaatgcagGGTGATGCTGGTTGGATGGGGAGGCAACAACGGCACCACGCTCACGGCTGGTGTCATCGCCAACAGAGA
          gattaac  putative branch site (score: 2)
      atttgattaactttt  TA-rich tract