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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttttccaaaataaattctctgttttttttgctgttaacaattcccaacaactgtaaactataaaataatgatttatcggtgacaaagttttgtatctaattttttgcacagGAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTTGAGCCTAGGGTTGTCAATTGGAACCTTGTCACCAAGGGTGAAAGTG

Basic information

species Glycine max
transcript GLYMA02G46580.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G46580.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g48740.1 (Oryza sativa), 3'ss of exon 12
gttttttccaaaataaattctctgttttttttgctgttaacaatt-cccaacaactgtaaactataaaataatgatttatcggtgacaaagttttgtatctaattttttgcacagGAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTTGAGCCTAGGGTTGTCAATTGGAACCTTGTCACCAAGGGTGAAAGTG
                               || | ||||    |    ||  | | | || |      ||   |  |   | | | ||| |||  |||||  | |      ||||| |||||||| |||| |||||  ||||||||||| ||||| ||||| ||  | || ||||||||||| |||||  |||| || ||||| |||  ||
------------------------------gtgttattaatttctgtttaattagttttaatttgttgttagataactccagttaataaattttcttatcttctct------cagGACAAGAGCTTATCAAATGGACGGTTTTTCCTTGAACTTCTTAGTGCAGTACAACCGAGGGTTGTCAACTGGAAAGTTGTTACAAAGGGGGAAGATG

upper sequence: GLYMA02G46580.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G55400.1 (Arabidopsis thaliana), 3'ss of exon 11
gttttttccaaaataaattctctgttttttttgctgttaacaattcccaacaactgtaaactataaaataatgatttatcggtgacaaagttttgtatctaattttttgcacagGAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTTGAGCCTAGGGTTGTCAATTGGAACCTTGTCACCAAGGGTGAAAGTG
                      |   | |||| || ||| |||  | ||| ||    ||| |  ||   ||  |  |   | |||  ||  | ||| |        ||  | |||| || ||  | || || ||| | || ||||| || |||||  | || |||||||| || ||||| || ||||| ||||||||||||||||||   |
--------------------gttccatcttttacttttatcaaaactcaa-aaaaaaaaagttcaactgaacaagcttatgttgaacaaaatctgtcttgctaaacttcaatagGATAAAAGTCTATCGAGCGGATTATTCTTCCTCGATCTTCTATGGGCGGTTGAGCCAAGAGTTGTTAACTGGAATCTTGTCACCAAGGGTGAATCAG

upper sequence: GLYMA02G46580.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv19s0090g01440.t01 (Vitis vinifera), 3'ss of exon 11
gttttttccaaaataaattctctgttttttttgctgttaacaattcccaac-aactgtaaactataaaataatgatttatcggtgacaaagttttgtatctaattttttgcacagGAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTTGAGCCTAGGGTTGTCAATTGGAACCTTGTCACCAAGGGTGAAAGTG
                       |||       ||  ||    |   |||  ||   |    | | |||  | | || |||     ||   | || | || || |  ||   ||||| |||| | |||| | |||| | || |||||||| ||||| |||||||| ||||| |||||||||||||||||||| || || |||||||||||||
-----------------------gttaaaaaatctcatacatttcttcaatgaatcatgctttcttaaaccaggcttcatcaacctcattatgttctctcaaactactt-ttcagGATAAGAACCTGTCCAATGGAATATTCTTCCTTGATCTTCTCAGTGCTGTGGAGCCAAGGGTTGTCAATTGGAACCTGGTTACTAAGGGTGAAAGTG

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|151403710|gb|EV273520.1|EV273520
EST:     ACAGAAAAGTGAAGATCATTGGTAGAACTTCTCACATAGAGAGCTTCAAG                         GAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTT
genomic: ACAGAAAAGTGAAGATCATTGGTAGAACTTCTCACATAGAGAGCTTCAAGgttttttcca ... ttttgcacagGAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actataaaataatgatttatcggtgacaaagttttgtatctaattttttgcacagGAGAAGAGCTTGTCAAGTGGACTCTTTTTCCTTGAGCTTCTGAGTGCTGTTGAGCCTAGGGTTGTCAATTGGAACCTTGTCACCAAGGGTGAAAGTG
                                     atctaat  putative branch site (score: 3)
                                           ttttttgc  CT-rich tract
                           aaagttttgtatctaa  TA-rich tract