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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgcaaacccatgtatcagatccaatctgcaatcatttataattcaattaatactcaactattaatccattgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT

Basic information

species Glycine max
transcript GLYMA01G01850.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 10
--gtagtgcaaacccatgtatcagatccaatctgcaatcatttataattcaattaatactcaactattaatccattgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT
    | || | | |||| ||  | |  || ||   |     | | ||||   ||  |  ||| ||  |||| | |||   |                    || | | ||  |||   ||||| ||| | || | | | ||||||||   |||  |  |||| ||||| |||||||||||||| ||||||||| | || ||||| |||||||||||||| || 
gtacaatgaagagccatataatatactcagtccata----ctgaaaatt--gttgttgttcaccttataattcgttgtggtc-------------------atgtttgttaatttgccttttg-cagCTTGAGATTTTGTCAAACGGCGGCTCCCTTCATGAGGTGGCACATATTGCAAATGGATCACATCCAAGGAATTGCATCTCTCTTCTTCGCATTAAC

upper sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G123140_T02 (Zea mays), 3'ss of exon 8
gtagtgcaaacccatgtatcagatccaatctgcaatcatttataattcaattaatactcaactattaatccattgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT
||| | |  |   || ||  |  || ||  |||| ||    ||  ||   ||  | ||    |  |  | ||      ||   |   ||    |  |    ||  || |||| |||||   |||| | || | | | |||| ||||  |||| |  | |||||||| |||||||||||||| ||||| |||   || ||||||||||||||| | || |||
gtactacctat--atttacgatttcaaacatgca-tcgc--atcgtt---ttggttctttgtttctgttgcaacaagCTTGAGATTAGTAGTGTCTT---CATGGATGTTTTAATTTT---GCAGCTTGAGATTATGTCAAGCGGGGGCTCACTTCACGAAGTGGCACATATTGCAAATGGATCACACCCAAAGAATTGCATTTCTCTTCTTAGAATCAAT

upper sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G46880.1 (Arabidopsis thaliana), 3'ss of exon 8
gtagtgcaaacccatgtatcagatccaatctgcaatcatttataattcaattaatactcaactattaatccattgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT
                                              | ||  || |||  | | ||    |  ||   || || | |   ||    | || || | ||   || |||    |||| | ||   | | |  || || || |||    ||||||| |||||||| |||||||| |||||||| ||||| ||||| ||||||||||| || |||
---------------------------------------------gtaaacaaaaactagagtctt--ctctctg---ttcttgatgccaaaaccct-aagattt-ttcgattttttccctgcagCTAGAGGTTTTGTTCAATGGTAATTCACCTCATGAAGTTGCTCATATCGCAAATGGTTCACATCCTGGAAATTGCATCTCTCTTCTTCGAATCAAT

upper sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 9
gtagtgcaaacccatgtatcagatccaatctgcaatcatttataattcaattaatactcaactattaatcc-attgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT
                            | || | |||   |||||||  | ||  ||  |  |   |||| |   |   |  | | |  |||   ||||  |  | | ||||         |||| | |||  |||||| || ||||| || ||  |||||||||| || ||||| |||||||| |||||||||||||||||||||||||||||||| |||
---------------------------gtttg-attcagacataattctttcaaatcttcaagacacatcctaaaacccatactcaagactaaa-aatgataacttgtatttt---------gcagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT

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|151393795|gb|EV263670.1|EV263670
EST:     CTCACACCAAGGTCTTTGATCTCCTCAGGGATGAACGCCACAGATCTCAG                         ATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCA
genomic: CTCACACCAAGGTCTTTGATCTCCTCAGGGATGAACGCCACAGATCTCAGgtagtgcaaa ... tttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT
                                tctatttttttatttt  CT-rich tract
                  ttaactgatgaatatc  TA-rich tract