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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGTTATCACACAGTGGGTCTGTCTTGTCTGCTCCATCTCCTAAACCTTGGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttggttcaagaaaataagcatgtatggttcacattactgtaattgagtggtccagagtttgatatatgcattcttcttttgatgtttcacaaca...

Basic information

species Glycine max
transcript GLYMA13G35120.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G35120.3 (Glycine max), 5'ss of exon 2
lower sequence: AT5G53850.3 (Arabidopsis thaliana), 5'ss of exon 2
TGTGTTATCACACAGTGGGTCTGTCTTGTCTGCTCCATCTCCTAAACCTTGGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgta-agtttggtt--caagaaaataagcatgtatggttc-acattactgtaattgagtggtccagagtttgatatatgcattcttcttttgatgtttcacaaca
  | |||||    | ||| ||  || | ||| | || ||||| || || |  ||  | |||||||| |||||||  ||||||| ||||||||||| |||||||  |||| ||       ||  ||   ||   || |||  | |||  |  |||      | |  || ||||| ||| || | | || |||   ||    | | 
CATCTTATCTGCTAATGGATCCATCATATCTACACCCTCTCCAAAGCCATACCCAAATAAGCCTCCCAAGTGTACCGATTGTGCTCCACTTTTCATGAAGgtatggttttgtcgctttcaaggtagtaatacttgattctgcgtta--gggatttctgtatacgtagcttgat-tat-cactttgctattggccttctttatct
















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|18039935|gb|BM308229.1|BM308229
EST:     GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
EST: gi|209713814|gb|BW684006.1|BW684006
EST:     GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
EST: gi|209717225|gb|BW657694.1|BW657694
EST:     GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
EST: gi|209711765|gb|BW678947.1|BW678947
EST:     GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTCCACAGTCA
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCA
EST: gi|298191951|gb|HO036033.1|HO036033
EST:     GGCCGCACAAGCCTCCTAAGTGTAGTGATCGTGATCCACTTTTCAGGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
EST: gi|298190687|gb|HO032808.1|HO032808
EST:     GGCCGCACAAGCCTCCTAAGTGTATTGATTGTGATCCACTTTTCAAGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG
EST: gi|209700267|gb|BW664493.1|BW664493
EST:     GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAG                         GCATATGAAATGCGTGATGCTGCGGCTGTTTTC-ACAGTCACGGAATAGAG
genomic: GGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttgg ... tcctttttagGCATATGAAATGTGTGATGCTGCGGCTGTTTTCCACAGTCACGGAATAGAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGTTATCACACAGTGGGTCTGTCTTGTCTGCTCCATCTCCTAAACCTTGGCCGCACAAGCCTCCTAAGTGTAGTGATTGTGATCCACTTTTCAAGAAGgtaagtttggttcaagaaaataagcatgtatggttcacattactgtaattgagtggtccagagtttgatatatgcattcttcttttgatgtttcacaaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG