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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCGCCGACCAGGAGCTCGGGATGGCCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcggggggctttcgcttccgccgcgtgcacttgtgtgattggtggctgaaagtttttttgtgttttttttttcgtttgctgcag

Basic information

species Oryza sativa
transcript LOC_Os08g29720.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G059018_T01 (Zea mays), 5'ss of exon 1
GGCCGCCGACCAGGAGCTCGGGATGGCCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcgggg--tcggggggctt--tcgcttccgccgcgtgcacttgtgtgattggtggctgaaagtttttttgtgttt------tttttttcgt-ttgctgcag
||  || ||||||||||||||||||  |||||||||| ||||||| ||||||||||| |||||||| || ||||||||||||||||| || ||||||||||||||    ||||||  ||   |||||  ||| |    | |||    || || ||  ||       ||| | || |      |||  |  || ||| |||||
GGGGGCGGACCAGGAGCTCGGGATGTACGAGCGCGCGTTCTCCGCTGCCGGCGCCGCCTTCGTCTCAGCTATCATCGTCAACCCTCTAGATGTCGCCAAGgtcggttcttcggggcactccctcgctcacgcagacctctcttccccgagtgttgtgtgcctccgctttggcgtctaatgcatttcctgtgtcttgatgcag

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G106703_T02 (Zea mays), 5'ss of exon 1
GGCCGCCGACCAGGAGCTCGGGATGGCCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcgggggg---ctttcgcttccgccg---cgtgcacttgtgtgattggtggctgaaagtttttttgtgttttttttttcgtttgctgcag--------
||  || |||||| |||| ||| ||  |||||||||||||||||||||||||||||| |||||||| || |||||||||||||||||||| || |||||||||||   | ||||    | ||| ||   || |     | | |    | || ||| |  | |    ||   |  |   | |  | ||||| |||           
GGGGGCGGACCAGCAGCTTGGGTTGTTCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCCTTCGTCTCAGCTATCATCGTCAACCCTCTCGATGTTGCCAAGgtcggttcccggggcactccttcactcatgcaggcctctcctcccacgggagtggagtgttatgcgttcgcttcggcgtctaatgcgtttcctgtgtcgatgcag

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA04G41730.1 (Glycine max), 5'ss of exon 1
GGCCGCCGACCAGGAGCTCGGGATGGCCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgt-------------cggggtcggggggctttcgcttccgc-cgcgtgcacttgtgtga-ttggtggctgaaagtttttttgt-gttttttttttcgtttgctgcag
   |       |  |  | || || |  || || ||  ||||||||||||||||||| ||| ||||||||||||| ||||| || |||||||| ||||||||                 ||   || || ||   |    |    ||   || || |   || || | ||||  ||      | ||| ||||   ||| |       
ATTCAATTCTGATCAATTGGGAATCGGAGAACGAGCTTTCTCCGCCGCCGGCGCCGCCTTCCTCTCCGCCATCATTGTCAATCCCCTCGACGTTGCCAAGgtactctctcaattttattgttaaggagcgttaattctgacatatgtttcctagtctctcttcgttgttgaagattaaagaattgttgttttgagcgtct-------

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA06G13050.1 (Glycine max), 5'ss of exon 1
GGCCGCCGACCAGGAGCTCGGGATGGCCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcggggggctttcgcttccgccgcgtgcacttgtgtgattggtggctgaaagtttttttgtgttttttttttcgtttgctgcag----------
  |        |  |  | || || |  |  || ||  ||||||||||||||||||| ||| ||||||||||||| ||||| || |||||||| ||||||||   |          |||   ||  |  || || | || ||  || |||  |  |   | | ||| | ||  || ||  |  |  || |           
ATCTAATTCTGATCAATTGGGAATCGGAGCACGAGCTTTCTCCGCCGCCGGCGCCGCCTTCCTCTCCGCCATCATTGTCAATCCCCTCGACGTTGCCAAGgtaccgtctcaatttttttttgttatggagc-tgaaattctgatataggtttcctattctctctttttattcgttgttgagcgtcttgaatgcgttttaga

upper sequence: LOC_Os08g29720.1 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv16s0050g02360.t01 (Vitis vinifera), 5'ss of exon 2
GGCCGCCGACCAGGAGCTCGGGATGGCCGAGCGCGCGCTCTCCGCCGCCGGCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcggggggc-tttcgcttccgccgcgtgcacttgtgtgattggtggctgaaagtttttttgt---gttttttttttcgtttgctgcag-----
     ||||  | ||  |  || |    || ||  |  |||| ||||| ||||||||  || |||| |||||| |||| ||||||||||| |||||||||||  | ||     |   ||| | || |      |  |   |   || |    |  |||  | || || |   ||  | || ||  |||      |     
CAAATCCGAAAACGATATGCGGTTCTTAGAACGGTCATTCTCTGCCGCGGGCGCCGCTGTCCTCTCGGCCATCCTCGTTAACCCTCTCGATGTCGCCAAGgtatgtgttttatgttgttttggtttctaaattttgaaaagctcgactcaacgaagaatttcttgttattcagtcctcttattgatttttctttgatttt

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|218497482|gb|FG960434.1|FG960434
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|58667354|gb|CK056040.1|CK056040
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|7273806|gb|AU083350.1|AU083350
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|58693531|gb|CK082218.1|CK082218
EST:     ACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: ACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|58672713|gb|CK061399.1|CK061399
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|58607537|gb|CK035570.1|CK035570
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|7274031|gb|AU083575.1|AU083575
EST:     G-GCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|29680567|gb|CB676842.1|CB676842
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
EST: gi|29677504|gb|CB673779.1|CB673779
EST:     GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAG                         ACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG
genomic: GCGCCGCGTTCGTCTCCGCCATCATCGTCAACCCTCTCGACGTCGCCAAGgtcggggtcg ... tttgctgcagACGAGATTGCAGGCGCAGGCGGCGGGGGTGCCCTACTACCAGCCGTCGCAG