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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGCTACACAAAGCTTGATTCTGTCAATGCTGAGGACTTCTTCTGTCGCTTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaagaatttaatgcaacctccgctatgtgatagccctgaaaagaacttgtttcgtatttgcagttaattccgttgacatctgcacaatattgatctgtt...

Basic information

species Oryza sativa
transcript LOC_Os07g08880.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g08880.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G097726_T02 (Zea mays), 5'ss of exon 2
GTAGCTACACAAAGCTTGATTCTGTCAATGCTGAGGACTTCTTCTGTCGCTTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaagaatttaatgcaacctccgctatgtgatagccctgaaaa-gaacttgtttcgtatttgcagttaattccgttgacatct-gcacaata--ttgatctgtt
||||||| ||||||||||||||||||||||||||||| |||||||| ||||| ||||| |||||||| || || ||||| || || || || || || |||||||||   |     || |  || || | ||     || |   | | |  | | | |||| || ||  |  |     ||||| |    ||   || |  ||  
GTAGCTATACAAAGCTTGATTCTGTCAATGCTGAGGATTTCTTCTGCCGCTTCGAGTATAAATCAGCTACTGGCAGCTTTGTACCAGATCGTATAGCAGTgtaagaacacagcaagactt--gcaatttcattattttggatttgcattcatgttgcatttacaatttgtagcaagttcatctagtctgattctttaacttg--

upper sequence: LOC_Os07g08880.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G097726_T01 (Zea mays), 5'ss of exon 2
GTAGCTACACAAAGCTTGATTCTGTCAATGCTGAGGACTTCTTCTGTCGCTTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaagaatttaatgcaacctccgctatgtgatagccctgaaaa-gaacttgtttcgtatttgcagttaattccgttgacatct-gcacaata--ttgatctgtt---------------------------------
||||||| ||||||||||||||||||||||||||||| |||||||| ||||| ||||| |||||||| || || ||||| || || || || || || |||||||||   |     || |  || || | ||     || |   | | |  | | | |||| || ||  |  |     ||||| |    ||   || |  |||                                  
GTAGCTATACAAAGCTTGATTCTGTCAATGCTGAGGATTTCTTCTGCCGCTTCGAGTATAAATCAGCTACTGGCAGCTTTGTACCAGATCGTATAGCAGTgtaagaacacagcaagactt--gcaatttcattattttggatttgcattcatgttgcatttacaatttgtagcaagttcatctagtctgattctttaacttgtgcaatgtgttaatctcctgctacctctaatccag

upper sequence: LOC_Os07g08880.2 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S171_11V6.1 (Physcomitrella patens), 5'ss of exon 2
GTAGCTACACAAAGCTTGATTCTGTCAATGCTGAGGACTTCTTCTGTCGCTTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaag--aatttaatgcaacctcc-gctatgtgatagccctgaaaagaacttgtttcgt-atttgcagttaattccgttgacatctg-cacaatattgatctgtt-------------------------------------------------------------------------------
  | |||||| || || ||  |||| | ||||||||||| ||||||||| |||||||||||  || | || ||  | |||   || |||||| | ||||||||||  |   | ||  |   |    ||  | |  |  | ||   ||      | | || || ||| |  ||| ||  | ||||| | ||    |||   |                                                                                   
AGAACTACACGAAACTGGAGGCTGTGAGTGCTGAGGACTACTTCTGTCGGTTTGAGTACAAGGCAACTACTGGTGGTTTCACTCCTGACCGCGTCGCTGTgtaagttaccgtgatagatttttttactgggcgtaaatcttgtgcagtttacttgtggtcatgtgctgcgaatgcc--ttacatccggcattgcattttcccaaggacttaattctaggattttatgtttgattcagtaactatttcgtggatgttattaattattttgagtatactactttag

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|58603106|gb|CK013634.1|CK013634
EST:     TTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGT                         GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATG
genomic: TTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaagaattt ... aatatgacagGTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAATG
EST: gi|33822155|gb|CF336893.1|CF336893
EST:     TTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGT                         GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATC
genomic: TTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaagaattt ... aatatgacagGTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATC
EST: gi|58679044|gb|CK067731.1|CK067731
EST:     TTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGT                         GTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAAT
genomic: TTTGAGTACAAATCAGCCACAGGAAGCTTCGTGCCCGACCGCATTGCTGTgtaagaattt ... aatatgacagGTTCTGCAAGTGTGAGATGCCATACAATCCTGATGACCTTATGATCCAAT