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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGAAGGGGAAACCATGAGGGTAATGTTTGAGCCTTGGTTTGTGAAGTACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgctaaaaagtgctccatttcattaggtgtcatgaatctaacattgctggggagaatgataaaaccacaacaatgctataaattttttcatactgtcaatcaattataaatcatcttaaatataaacaatcttatcgtacttgataatttataattatatgcaccccatatcag

Basic information

species Glycine max
transcript GLYMA12G34960.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G34960.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g56880.1 (Oryza sativa), 5'ss of exon 6
CATGGAAGGGGAAACCATGAGGGTAATGTTTGAGCCTTGGTTTGTGAAGTACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgctaaaaagtgctccatttcattaggtgtcatgaatctaacattgc-tggggagaatgataaaa-----ccacaacaatgctataaattttttcatactgtcaatcaattataaatcatcttaaatataaacaatcttatcgtacttgataatttataattatatgcaccccatatcag
||||||||| |||| |||||| || |||| |||||| ||||| || |||||||| |||||  | |||||||| || || || |||||||||||||| |  |||||  || | | ||  |   |  | | |    |  | ||   ||| |||| ||||||     ||  ||        ||||     ||  || |||  ||  |                                                                                 
CATGGAAGGTGAAAGCATGAGAGTTATGTATGAGCCGTGGTTCGTCAAGTACAAAGTTGACCTCGTGTTTGCAGGACATGTTCATGCCTATGAACGGACAgtaagcacttaca-gttttttttcccctgaaaaatagttaa---aactttgcatggggaatcaaatggaaatttcttgcaacttcattaggaactttagcacgc---------------------------------------------------------------------------------

upper sequence: GLYMA12G34960.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G093101_T01 (Zea mays), 5'ss of exon 6
CATGGAAGGGGAAACCATGAGGGTAATGTTTGAGCCTTGGTTTGTGAAGTACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgctaaaaagtgctccatttcattaggtgtcatgaatctaacattgctggggagaatgataaaaccacaacaatgctataaattttttcatactgtcaatcaattataaatcatcttaaatataaacaatcttatcgtacttgataatttataattatatgcaccccatatcag
||||||||| |||||||||||||| |||| |||||| ||||| ||||||||||| ||||| ||||||||||| || || ||||| ||||| ||||| |  |||||           |||||||   || |  |        |||    ||||    |     | ||      | ||  ||||||  | || |      | | | | | |   |  ||                                                              
CATGGAAGGTGAAACCATGAGGGTGATGTATGAGCCATGGTTCGTGAAGTACAAAGTTGACGTTGTGTTTGCAGGACATGTCCACGCCTACGAACGCACAgtaagca---------gctccatactatcaatt--------tcttctgttgcaaatggttgggttattttttccactctgctatggacttctgagagttat-actaagtaggatgtcg-------------------------------------------------------------

upper sequence: GLYMA12G34960.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G16430.2 (Arabidopsis thaliana), 5'ss of exon 6
CATGGAAGGGGAAACCATGAGGGTAATGTTTGAGCCTTGGTTTGTGAAGTACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgctaaaaagtgctccatttcattaggtgtcatgaatctaacattgctggggagaatgataaaaccacaacaatgctataaattttttcatactgtcaatcaattataaatcatcttaaatataaacaatcttatcgtacttgataatttataattatatgcaccccatatcag
||||||||| ||||| ||||||||||||| |||| |||||||||| |||||||| || ||||| || ||||| ||||| ||||| ||||| ||| ||   |||||    || || |  |     |||  | || || | || |||    | ||  | |   |    || | |     |  | |                                                                                                
CATGGAAGGTGAAACAATGAGGGTAATGTATGAGGCTTGGTTTGTCAAGTACAAAGTAGATGTAGTTTTTGCAGGTCATGTCCACGCCTACGAAAGATCGgtaag-atcaataact--tttgggtcacgatgtctctttaaactatagatactaagaaatct----aagctattgtgaaaccag-----------------------------------------------------------------------------------------------

upper sequence: GLYMA12G34960.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv03s0038g00220.t01 (Vitis vinifera), 5'ss of exon 6
CATGGAAGGGGAAACCATGAGGGTAATGTTTGAGCCTTGGTTTGTGAAGTACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgc--taaaaagtgctccatttcattaggtgtcatgaatctaacattgctggggagaatgataaaaccacaacaatgctataaattttttcatactgtcaatcaattataaatcatcttaaatataaacaatcttatcgtacttgataatttataattatatgcaccccatatcag
 |||||||||||||||||||| || ||||||||| | ||||||||  ||||||| ||||||||||||||||||||||| || || || || ||| ||  |||||||||  |  |   | ||  || |  | |||| |||  |||      ||  | ||     || | |     |||   |  |  |||  |||    |   |||                                                                            
TATGGAAGGGGAAACCATGAGAGTCATGTTTGAGTCATGGTTTGTAGAGTACAAAGTTGATGTTGTGTTTGCTGGTCATGTTCACGCATACGAAAGATCTgtaagtgcacttcatcctcctatatattgtaaggtttca-aaatggtgttttcatcggttctctgtttag----caaggtttttgaaaacatttcttaaaaatca----------------------------------------------------------------------------

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|192310987|gb|FK000378.1|FK000378
EST:     ACAAG-TTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGA-GT                         GA-CGA-TCTCCA-CACTGGATACA-CAT-ACCA-TGGTCGAT
genomic: ACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgcta ... cccatatcagGAACGAATCTCCAACACTGGATACAACATTACCAATGGTCGAT
EST: gi|192310988|gb|FK000379.1|FK000379
EST:     ACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGT                         GAACGAATCTCCAACACTGGATACAACATTACCAATGGTCGATGCAGGCCT
genomic: ACAAGGTTGATGTTGTGTTTGCTGGTCACGTCCATGCCTATGAACGAAGTgtaagtgcta ... cccatatcagGAACGAATCTCCAACACTGGATACAACATTACCAATGGTCGATGCAGGCCT