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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattctgttatgtacctttttggatactttgttcttttgacttatgttgtgtagcaggctatattcagacaaactagccagtagcataccgagatgactttgaatttagtttgaaatttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGAGATATCAAGCCACAGAATCTTCTG

Basic information

species Oryza sativa
transcript LOC_Os01g14860.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14860.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G835235_T04 (Zea mays), 3'ss of exon 5
gtaatattctgttatgtaccttt-----ttggat-----------actttgttcttttgactta-------tgttg-tgtagc-----aggctatattcagacaaactagccagtagcataccgagatga---------------ctttgaatttagtttgaaat--ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGAGATATCAAGCCACAGAATCTTCTG
|||||||| |||    | |  ||     ||| ||           |  || || ||| || | |       | ||| || |||     | |||||  ||     | |||   | | ||   |   ||||                 || | ||| | |||| | |  || ||| ||||| ||||| ||||| |||||||| |||  ||  ||||| || |||||||||||||| |||||||| |||||||||
gtaatattttgtcccttcctcttggttattgcattagttgtacttaacttattttttggattcagaatgtttattgctgcagctaaaaaagctattgtcttttgacctaaatattggctgcctctgatggatgcgctagttcttttttcgtattgattttgtattggtttttggcagATATGTAGAGCATTGGCTTACATTCATGGTACTATCGGTGTCTGCCACAGAGATATTAAGCCACAAAATCTTCTG
















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|58602640|gb|CK013168.1|CK013168
EST:     GATGAACCAGCGTAGTGGCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: GATGAACCAGCGTA-TGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58686155|gb|CK074842.1|CK074842
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|2317492|gb|C22546.1|C22546
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58664832|gb|CK053518.1|CK053518
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58665294|gb|CK053980.1|CK053980
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCC
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCC
EST: gi|58673993|gb|CK062679.1|CK062679
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58676495|gb|CK065182.1|CK065182
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAAT
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAAT
EST: gi|58665103|gb|CK053789.1|CK053789
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTT
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTT
EST: gi|29687086|gb|CB683361.1|CB683361
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|218486932|gb|FG950343.1|FG950343
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCNCAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|38469291|gb|CF953422.1|CF953422
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|29677190|gb|CB673465.1|CB673465
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58652484|gb|CK041164.1|CK041164
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58679239|gb|CK067926.1|CK067926
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58671331|gb|CK060017.1|CK060017
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|218496430|gb|FG946684.1|FG946684
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGT-CCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58675968|gb|CK064655.1|CK064655
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
EST: gi|58590979|gb|CF989287.1|CF989287
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATATGTAGGGCATTAGCTTACATCCATAATAGCATCGGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGA
EST: gi|58679895|gb|CK068582.1|CK068582
EST:     AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAG                         ATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA
genomic: AGATGAACCAGCGTATGCCACTTATCTATGTGAAGCTGTATATGTACCAGgtaatattct ... ttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actagccagtagcataccgagatgactttgaatttagtttgaaatttgttgacagATTTGTAGGGCATTAGCTTACATCCATAATAGCATCGGAGTTTGCCACAGAGATATCAAGCCACAGAATCTTCTG
                          tttgaatttagtttga  TA-rich tract