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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTAAAGGCAGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaataagattgagatcctatatcactaacaattaaggcttagtaatcttagcaagttctgattacaacaagggtattttgtttag

Basic information

species Glycine max
transcript GLYMA10G32500.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32500.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 5'ss of exon 11
TGTTAAAGGCAGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaataagattgagatcctatatcactaacaattaaggcttagtaatcttagcaagttctgattacaacaagggtattttgtttag
  | ||| |  | ||||| || || ||| | ||||| || || |||||||||||||| ||||| || || || |||||||||||||| ||||| || ||||| |  | ||  |   |   | |||   |    |||| |   ||| | |||| |  ||   |   ||  | ||    | |||  || ||
CTTAAAACGGTGTAAACTCTCAGGGAATATATTCAACATCCTATTCAATCTCAACAAATTTATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgatcacaacttcttg---ccataaagcagtgaattcactgttaatcatctaaataa---caagttggatcatc--tttttatttcag

upper sequence: GLYMA10G32500.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 11
TGTTAAAGGCAGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaataagattg---agatcctatatc-actaacaatta--aggcttagtaatcttagcaagttctgattacaacaagggtattttgtttag
  | ||| |  | ||||| || |||||  | ||||||||||||||||||||||||||||| || || || || |||||||||||||| ||||| || ||||| |  ||||   |    | |   || ||   ||  ||| ||  | | | | |||| |    ||  | | |||  |                   
CTTAAAACGGTGTAAACTCTCAGGAAACATATTCAATATTCTTTTCAATCTCAACAAGTTCATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgattataatccttaataaactttagatttgctgccaagtattaagttaaataat-tggctaatgtttaattgtag------------------

upper sequence: GLYMA10G32500.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S34_411V6.1 (Physcomitrella patens), 5'ss of exon 11
TGTTAAAGGCAGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgta--aaaata---agattgagatcct--atatcactaacaattaaggcttagtaatcttagcaagttc--tgattacaacaagggt----attttgtttag
  | ||  |  | ||| | ||||| ||| ||||||||||||| ||||| || ||||||||  | || || ||||||||||| || |||||||| |||||||||  | | ||   | || || | |||  || ||| |    | |  | | ||       |  | |||||  |  | ||||  | |      || || |||  
CCTGAAGCGGTGTAAATTATCTGGGAATTTTTTCAATATTCTCTTCAACCTGAACAAGTTCGTAGCATTTGAGACTCGTGACCCTTTTCTCATTCGTCAGgtattacattactcatatcgaaaacctggatttcaattcttagttggtcataaagcgagtgtccagttcattattcacaattatgaactaaatcttattt--

upper sequence: GLYMA10G32500.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S147_62V6.2 (Physcomitrella patens), 5'ss of exon 11
TGTTAAAGGCAGCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgta----aaaataagatt-gagatccta---tatcactaacaattaaggcttagtaatct--tagcaagttctgattacaacaagggtattttgtttag-
| | ||  |  | ||| | ||||| ||  | |||||||| || ||||||||||| |||||  ||||||| ||||||||||| || || ||||| |||||||||        |   |||  |||||  |   ||||| | |   |  | ||||  || | |  ||  ||   | | |  |       || | |   ||   
TTTGAAGCGATGTAAATTGTCTGGGAACTTCTTCAATATACTCTTCAATCTCAATAAGTTCGTTGCTTTTGAGACTCGTGACCCCTTCCTCATCCGTCAGgtatttcgtcctcttattcaagatctcagcatatcagtcatcttctaagcttgatattgtagtacgaaaaacaggtccctttcgacgtttataaattgcc

upper sequence: GLYMA10G32500.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
TGTTAAAGGCA-GCAAACTTTCTGGAAATGTTTTCAATATTCTTTTCAATCTCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaa-----taagattgaga-tcctatatcactaacaattaaggcttagtaatcttagcaagttctgattacaacaagggtattttgtttag------
  ||||||  | ||||| | ||||||||  | |||||||| ||||| || |||||||| ||  | ||||| |||||||||||||| || || || |||||||||| |       |   || ||| | | | |||   | || |||   || || |||  || ||     |||  |  | | |   |  | | || |      
-CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttctgag-aatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag

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|9204760|gb|BE330984.1|BE330984
EST:     TCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAG                         TAACGTGAGGATCCAAATTTGACAGAGTGGGATCGTTTTGCACATAGAGAG
genomic: TCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaataa ... ttttgtttagGAACGTGAGGATCCAAATTTGACAGAGTGGGATCGTTTTGCACATAGAGAG
EST: gi|21256450|gb|BQ453338.1|BQ453338
EST:     TCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAG                         GAACGTGAGGATCCAAATTTGACTGAGTGGGATCGTTTTGCACATAGAGAG
genomic: TCAACAAGTTTATTGCTTTCGAGACTCGTGATCCATTTCTCATACGTCAGgtaaaaataa ... ttttgtttagGAACGTGAGGATCCAAATTTGACAGAGTGGGATCGTTTTGCACATAGAGAG