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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtgtgatcgtttgtactagcttgctgatgcttcttttttgtttgtag

Basic information

species Glycine max
transcript GLYMA10G39540.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os11g04980.1 (Oryza sativa), 5'ss of exon 19
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtg-tgatcgtttgtactagcttgctgatgcttcttttttgtttgtag
||||| || || ||||| || ||||| || ||||| ||||| ||||||||||| ||||| || || || ||||| ||| | |||||||||||| ||||||||||    ||  || ||          |   |  ||  | ||  |||    |   |     | ||   |  ||||  || ||
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCCGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTTATTGCGCAGTGCTTTATATATGgtaat---attcatgatcttatattggttattacgtactaattatttaccatgtatattctaagccgttgatttgaatgcag

upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os12g04990.3 (Oryza sativa), 5'ss of exon 18
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtgtg---atcgtttgtactagcttgctgatgcttcttttttgtttgtag
||||| || || ||||| || ||||| || ||||| ||||| ||||||||||| ||||| || || || ||||| ||| | ||||||| |||| ||||||||||       | ||||  ||  | | | | | |   |    ||  ||||   ||  |     | |||  |  || |  || ||
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCCGAGAAGATTGAGAATGTCTATGCTAAGTGCAAGTTTATTGCGCAGTCCTTTATATATGgtaat------attcatgtccttatactggttataactaccaataatttgccatatatgttctaagctgttgattcggatgcag

upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G176546_T01 (Zea mays), 5'ss of exon 10
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtg-tgatcgtttgta--ctagcttg--ctgatgcttcttttttgtttgtag
||||| || || ||||| || ||||| || ||||| ||||| ||||||||||||||||| || ||||||||||| ||  | || || || ||| ||||||||||    ||  || ||||       || | | | ||   |||  || |   | ||| ||  || |  ||  | ||| | ||| ||
AAGAACATTTTCAAGTTAGCTCAAGGAGAATACATAGCTCCAGAGAAGATTGAAAATGTCTATGCCAAATGCAAGTTCATTGCCCAATGTTTTATATATGgtaat---atttatgattct---gtgttggctatatgaccatcagttatggccaagcatgttctaaatctcttgtttcggttgcag

upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: AT3G05970.1 (Arabidopsis thaliana), 5'ss of exon 19
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtg-tgtgatcgtttgtactagcttgctgatgcttcttttttgtttgtag
||||| ||||| || ||||| || || ||||| || ||||| ||||| |||||||| || || |||||||||||||||||||  ||||||||  |||||||||  | ||  ||| ||    |    ||  || |    |  |  ||| | ||  |    |    | | ||     |||  ||
AAGAACATCTTCAAATTGGCGCAGGGGGAGTATATAGCTCCAGAGAAAATTGAAAACGTCTATGCCAAATGCAAATTTGTGGGCCAGTGCTTCATATATGgtatagtaaacaattatagtaaattgttttgtataacattttgctttatcctttccccatctcacctgttaccaattttcag

upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 5'ss of exon 19
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtgtgatcgtttgtactagcttgctgatgcttcttttttgtttgtag
||||| || ||||||||||||||||| |||||||| ||||| ||||| ||||| |||||||| || |||||||||||||| || ||||||||||||||||||||| |||   |    |   ||||||    | | | | ||| ||||  |  |||  ||| |  |  || | || |  |||
AAGAACATTTTTAAGTTGGCACAAGGAGAGTACATAGCTCCAGAGAAAATTGAGAATGTATATGCTAAATGCAAATTTGTTGCCCAGTGCTTTGTATATGgtaagaaaaatga--gattttacaaatc---tctctttcatcttttg--cctgctgactgct--tatttctctgatgatag

upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: PP1S408_23V6.1 (Physcomitrella patens), 5'ss of exon 21
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtgtgatcgtttgtactagct--------tgctgatg--------cttcttttttgtttgtag---
|||||||||||||||||||| ||||| ||||||||||| || |||||||| || ||||| |||       |    ||  |  | ||||| |   || |||||| |   ||   | |     |  || ||    | | |  | || |  || || |        ||  ||||         || |||||  | || |    
AAGAATATCTTTAAGTTGGCTCAAGGAGAGTACATTGCCCCGGAGAAGATCGAGAATGTCTACCTTCGCAGTCGTTTCATAACACAGTGTTACATACATGgtatgttcattttttaaatggaggaactcttcatttcttgtggtctaaacaagttgcaactggtgtagatgacttaagatttttttttcatctgaaatga

upper sequence: GLYMA10G39540.1 (Glycine max), 5'ss of exon 19
lower sequence: PP1S33_126V6.1 (Physcomitrella patens), 5'ss of exon 22
AAGAATATCTTTAAGTTGGCACAAGGCGAGTACATTGCTCCTGAGAAGATTGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaataaatcattcccacaaattcggtgtgtgtgatcgtttgtactagcttgctgatgcttcttttttgtttgtag--------------------
||||||||||| |||||||| || || ||||||||||| || ||||||||||| || || |||     | |    ||  | || ||||||||| |  |||||  |   ||  |        |   || |  | |   |  ||      |   |||||  | ||   |    | |||  | |                    
AAGAATATCTTCAAGTTGGCTCAGGGAGAGTACATTGCGCCCGAGAAGATTGAGAACGTCTACCTGCGAAGTCGGTTCATTGCACAGTGCTTTATTCATGgtgcgttcattcaattaatggaggcatcccttct-cattgtctcagtcatctgcttgtggttgaaacaccatggttactggggttgtgggtgctttaagag

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|10843907|gb|BF067252.1|BF067252
EST:     TGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATG                         GTGATAGCCTAAATTCTTCTTTGGTAGCTGGTGTCTCGGTGGATCATGATA
genomic: TGAAAATGTATACGCCAAATGCAAATTTGTGGCGCAGTGCTTTGTATATGgtaaggaaat ... ttgtttgtagGTGATAGCCTAAATTCTTCTTTGGTAGCTGTTGTCTCGGTGGATCATGATA