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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGGCTGGAAATAAAGTTATGGAAATGATAACGGAGCCATATAGGTTGACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccacttactatctgtttcataatgccattgttaccttgttgctactcttttaatatcaacaaaaactaggaggaatattcgaatttataactgat...

Basic information

species Oryza sativa
transcript LOC_Os06g08400.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g08400.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G017845_T01 (Zea mays), 5'ss of exon 10
GAATGGCTGGAAATAAAGTTATGGAAATGATAACGGAGCCATATAGGTTGACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccacttactatctgtttc--ataatgccattgttaccttgttgctactcttttaatat-caacaaaaactaggaggaatattcgaatttataactgat
||||||||||||| ||| |||||| ||||||||| |||||||||||| |||| || ||||||||||||||||||||||| ||||| |||||||||||||||||||      ||  | |||||   |||||| |||  | |     |    ||      ||| | |  |   | ||   |    ||   | | || |  |    
GAATGGCTGGAAACAAAATTATGGGAATGATAACAGAGCCATATAGGCTGACACGGCGATGTGAAGTGACTGCAATTCTTATTCTGTATGGTCTCCCAAGgtgaaatgtcaaccttttgttttgtataatgtcataatcagtacctcctgaccgagacaatctgctgccccagctttaatctctacgtgcacttttgccc---

upper sequence: LOC_Os06g08400.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA14G08450.1 (Glycine max), 5'ss of exon 10
GAAT--GGCTGGAAATAAAGTTATGGAAATGATAACGGAGCCATATAGGTTGACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtga--accacttactatctgtttca-taatgccattgttaccttgttgctactcttttaatatcaacaaaaactaggaggaatattcgaatttataactgat
||    | || |  | ||    ||||| |||| | |  ||||||| ||   ||||   || || || |||||||||||||||||| | |||||||| ||||||| |  |  | ||| |   | |   | |  ||  | |   |  |   |  || |||   ||   ||| |||   |   | | ||      |  | | |   | 
GACCTAGACTTGGGACAACA--ATGGACATGAGAGCACAGCCATACAGACCGACTACACGCTGCGATGTGACTGCAATTCTCATTTTATATGGTCTTCCAAGgtaataataatttagtgcttttgcaacttgtgtaacttggagataaataataatcta--aaagacaaaaaagtttcccaagtatgaaaacaactgttaacaa-

upper sequence: LOC_Os06g08400.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 14
GAATGGCTGGAAATAAAGTTATGGAAATGATAACGGAGCCATATAGGTTGACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccacttactatctgtttcataatgccattgttaccttgttg-ctactcttttaatatcaacaaaaactaggaggaatattcgaatttataactgat
  |   | ||  ||    ||||  | ||||| || || || | |||| |    ||||||||||||||||| |||||||| ||| | ||||| ||||| ||||     |  |  |||    |  ||      ||  |||| |  |||  || | ||    |||       ||| |  |      | | ||  || |      
TTAGTACAGGCTATCGGATTATCAACATGATGACAGAACCTTGTAGGCTAGTCCGTCGATGTGAAGTGACAGCAATTCTTATTTTGTATGGGCTCCCGAGgtattatatctcttatgctctctatcccaaaatgtttacttgcttgattagttttgatgtatgtgtcgcaaccaaaaaatccctcctaaaatacag-----

upper sequence: LOC_Os06g08400.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 11
GAATGGCTGGAAATAAAGTTATGGAAATGATAACGGAGCCATATAGGTTGACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccacttactatctgtttcataatgccattgttaccttgttgctactcttttaatatcaacaaaaactaggaggaatattcgaatttataactgat
      | ||  ||    |||| || ||||| || || || |||||| | |  ||||||||||||||||| |||||||||||| | ||||| ||||||||||  | | ||||    || | |   ||    ||||||  |||| |       |||| ||         ||  |  |    |  | ||||  |        
TTGGCACAGGCTATCGGATTATAGACATGATGACAGAACCTTATAGGCTAATCCGTCGATGTGAAGTGACAGCAATTCTCATTTTGTATGGGCTCCCAAGgtacatctcttataccctctatagcaa----attgtttacttgctttagtagttttgatgcatgtggcaaa-aacaaccttccttgaatacag-------

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|87024665|gb|CI259380.1|CI259380
EST:     TTCTCATTCTTTATGGTCTCCCAAG                         ATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
genomic: TTCTCATTCTTTATGGTCTCCCAAGgtgaaccact ... gttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
EST: gi|3766689|gb|AU030799.1|AU030799
EST:     TGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAG                         ATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
genomic: TGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccact ... gttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
EST: gi|86481569|gb|CI124202.1|CI124202
EST:     ACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAG                         ATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
genomic: ACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccact ... gttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
EST: gi|86478774|gb|CI121407.1|CI121407
EST:     ACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAG                         ATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
genomic: ACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccact ... gttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
EST: gi|29681610|gb|CB677885.1|CB677885
EST:     ACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAG                         ATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG
genomic: ACTCGTCGATGTGAAGTGACTGCAATTCTCATTCTTTATGGTCTCCCAAGgtgaaccact ... gttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCG