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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGCGAAAACTATTCTCCAGGATGGAAGTATTCCCACTGGGAGATGAAAGGCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggtcacaccatttaatttattaacttcattgatcagtggcacattaattactataatgcttctaggactcttcataaagtagttaatgataaa...

Basic information

species Oryza sativa
transcript LOC_Os12g25710.4
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G094123_T01 (Zea mays), 5'ss of exon 9
CCGCGAAAACTATTCTCCAGGATGGAAGTATTCCCACTGGGAGATGAAAGGCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggtcacaccatt-taatttattaacttcattgatcagtggcacattaattactataatgcttctaggactcttcataaagtagttaatgataaa--
||| ||||| || |||||||| |||||||||||||||||||| |||||||| |||||  | ||||||||||| |||||||||||| |||||||||| |||||||    ||     | |   || | |  |  |||||   | | | | |     |||  | |  |   |||     | |  || || || |     | |    
CCGTGAAAATTACTCTCCAGGTTGGAAGTATTCCCACTGGGAAATGAAAGGTGTTCCATTGAGAATTGAGATTGGTCCAAAAGATCTGGCAAACAAACAGgtacctgagtattttcctcgcaaatcacca--ttcatgtttaaattggat-cacatttttttgttaactcttatcttttatattaattaatgtgccacatgaa

upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA03G38340.1 (Glycine max), 5'ss of exon 10
CCGCGAAAACTATTCTCCAGGATGGAAGTATTCCCACTGGGAGATGAAAGGCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggtcacaccatttaatttattaacttcattgatcagtggcacattaattactataatgct--tctaggactcttcataaagtagttaatgataaa----------
  | || || |||||||| ||||||||||||||  | ||||| |||||||| ||||||||||||||||| || || ||||| ||| | ||||| || |||||    |  |    ||   |  |  || || |    |  |   || ||  ||  || | | | || |  | |   | |   ||| || ||  |     |  |          
TAGAGATAATTATTCTCCTGGATGGAAGTATTCTAATTGGGAAATGAAAGGTGTTCCTCTAAGAATTGAAATTGGGCCAAAGGATTTAGCAAATAAGCAGgtcattaactttgtcctagtgttgcatcaattctcgtatt---tgtcattttgctt-ccacactgttagtttttcagtgaacatcaaataaatctctttggattttgcatag

upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA19G40930.4 (Glycine max), 5'ss of exon 10
CCGCGAAAACTATTCTCCAGGATGGAAGTATTCCCACTGGGAGATGAAAGGCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggtcacaccatttaatttattaacttcattgatcagtggcacattaat-tactataatgcttctag--gactcttcataaagtagtt--aatgataaa---
  | || || |||||||| ||||||||||||||| ||||||| |||||||| ||||||||||||||||| || || ||||| ||| | ||||| || ||||| ||         ||| |   ||||| || |    |  |           |     ||| | |   ||  ||   || |   |||||    ||  |||  |  |   
TAGAGATAATTATTCTCCTGGATGGAAGTATTCCAACTGGGAAATGAAAGGGGTTCCTCTAAGAATTGAAATTGGGCCAAAGGATTTAGCAAATAAGCAGgt-catcaactttgccagt-gttttatcaattctcatatttgtcattttgcttccacactgttagtttttcagtgaacaccaaataaatctctttgaattttgcatag

upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 5'ss of exon 10
CCGCGAAAACTATTCTCCAGGATGGAAGTATTCCCACTGGGAGATGAAAGGCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacaga-ggtcacaccatttaatttattaacttc--attgatcagtggcacattaattactataatgcttctaggactcttcataaagtagttaatg-ataaa----------------------------------------------
  | || |||||||| ||||| ||||||||||| || ||||| ||||| || |||||||| ||||||||||| || ||||||||  | || ||||| ||||||  |    ||  |    |   ||||||  |||   |   ||  ||  |   || || | |||  ||  | |      ||  ||    |    | |  ||                                                 
TAGAGATAACTATTCACCAGGTTGGAAGTATTCACATTGGGAAATGAAGGGTGTTCCTCTTAGAATTGAGATTGGGCCAAAAGACTTAGCTAACAAGCAGgtatgggtaatccaattgctatttttatttcctttcaaccaatttgtttcttctttat-attattgtgtctgttcagtactctatggtatttccatttcattgcttttacttatttactggaagaatgatatattttgttctatccacag

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|29612729|gb|CB617742.1|CB617742
EST:     GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAG                         GCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
genomic: GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggt ... tgcttttcagGCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
EST: gi|29665238|gb|CB661513.1|CB661513
EST:     GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAG                         GCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
genomic: GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggt ... tgcttttcagGCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
EST: gi|29622778|gb|CB627789.1|CB627789
EST:     GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAG                         GCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
genomic: GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggt ... tgcttttcagGCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
EST: gi|29616050|gb|CB621062.1|CB621062
EST:     GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAG                         GCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT
genomic: GCGTTCCTCTAAGAATTGAGATAGGTCCAAAAGATATGGCAAACAATCAGgtacagaggt ... tgcttttcagGCCCGTGTTGTTAGGCGAGACAATGGTGCAAAAGCTGATATTCCTACGGCT