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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccaaattcatgtcaatgtttcatttgtttttgtgttccttaatttttagattccattttacaaatatgctagggagctagcaataatggtgatgggttataaaaaccttagctaagtcacagAGATCTTAATCACACAAATCAATATATAGTGGGACTTGCTCTTTGTGCTTTAGGAAATATTTCTTCAGCCGAAATGGCTCGTGATCTTGCACCAGAGGTT

Basic information

species Glycine max
transcript GLYMA08G39930.1
intron # 2
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G39930.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G60070.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatccaaattcatgtcaatgtttcatttgtttttgtgttccttaatttttagattccattttacaaatatgctagggagctagcaataatggtgatgggttataaaaaccttagctaagtcacagAGATCTTAATCACACAAATCAATATATAGTGGGACTTGCTCTTTGTGCTTTAGGAAATATTTCTTCAGCCGAAATGGCTCGTGATCTTGCACCAGAGGTT
||||||   || |||    |  ||  |||| |||||  |||| || |  |    |  | |||| |    ||  | |    | |    | | | | ||   || | | ||||||  || |     |||||||| |||||||| || || || || ||||| |||||||| ||||||||||||||||||| |||||| ||||||||||||||||| || || || |||
gtatcc---tttatggtgttaatt--tttgattttg-attccctagtagtgttttaactttttgctggcatcttcgca--caaatttttaagttcatc--ttgtgagaaccttgacttacgtctagAGATCTGAATCACACGAACCAGTACATTGTGGGGCTTGCTCTCTGTGCTTTAGGAAATATTTGTTCAGCAGAAATGGCTCGTGATCTCGCCCCTGAAGTT

upper sequence: GLYMA08G39930.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 2
gtatccaaattcatgtcaatgtttcatttgtttttgtgttccttaatttttagattccattttacaaatatgctagggagctagcaataatggtgatgggttataaaaaccttagctaagtcacagAGATCTTAATCACACAAATCAATATATAGTGGGACTTGCTCTTTGTGCTTTAGGAAATATTTCTTCAGCCGAAATGGCTCGTGATCTTGCACCAGAGGTT
                                        | |||   ||   |    ||| |   ||  |   |  ||   |  || |       |   ||  |  ||||||| || |     |||||||| ||||| |  || || || || ||||||||||||||||||||| | |||||||||| |||||| ||||||||||||||||||||||| || || 
--------------------------caaaaaaaaaaaaacattatcgttggtacgatattcttacaaagtcgaaaagaaaaaaaaaaatcatcactcctttgcaggaaccttaacttatatttagAGATCTCAATCATAACAACCAGTACATTGTGGGACTTGCTCTTTGTGCTCTGGGAAATATTTGTTCAGCAGAAATGGCTCGTGATCTTGCACCTGAAGTG
















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|207819262|gb|GD792724.1|GD792724
EST:     CTCGATGAAAGACAAGAGGTTCTAATGTTGGTCACCAATTCTTTGAAACA                         AGATCTTAATCACACAAATCAATATATAGTGGGACTTGCTCTTTGTGCTTT
genomic: CTCGATGAAAGACAAGAGGTTCTAATGTTGGTCACCAATTCTTTGAAACAgtatccaaat ... taagtcacagAGATCTTAATCACACAAATCAATATATAGTGGGACTTGCTCTTTGTGCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctagggagctagcaataatggtgatgggttataaaaaccttagctaagtcacagAGATCTTAATCACACAAATCAATATATAGTGGGACTTGCTCTTTGTGCTTTAGGAAATATTTCTTCAGCCGAAATGGCTCGTGATCTTGCACCAGAGGTT
 aaccttagc  putative branch site 
                             ttataaaaacctta  TA-rich tract