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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTTAAGGAGTCAAAGATTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaatctggtatcacttaatgtagaatttagcgcttcagttttttgttctgctaaaaaggttcaagtgcttgcttgatctcttactggaagatccaaattgatgaatgttgcatacag

Basic information

species Glycine max
transcript GLYMA10G34010.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G34010.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv13s0073g00160.t01 (Vitis vinifera), 5'ss of exon 6
GTATTTAAGGAGTCAAAGATTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaa-atctggtatcacttaatgtagaatt----tagcgcttca--gttttttgttctgctaaaaaggttcaagtgcttgcttgatctcttactggaagatccaaattgatga-atgttgcatacag
|||||||| |||||||| ||||||||||| || |||||||||||| |  ||||||| | |||   ||||||| | || ||    |   ||||  |  |  |||    ||    | ||  | || |  ||||  ||     ||   | |   || ||||| |||| |    ||||   ||||  ||| |   || || |||
GTATTTAATGAGTCAAAAATTGTGGAATACAGCATCAAAGAAAATCTAATTTCACCTGAAAAGACAGAGgtttgaaatattctcttcaacttgcttcaatattattttaagattgcaaagattctctttctctta-----gtcttattttatgtttgat-tcttgcatatagatttgaattcttgataaactgaattcag
















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|58018810|gb|CX705552.1|CX705552
EST:     TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
EST: gi|298191014|gb|HO038493.1|HO038493
EST:     TTGTGGAGTATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
EST: gi|15288312|gb|BI472203.1|BI472203
EST:     TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
EST: gi|298180389|gb|HO025590.1|HO025590
EST:     TTGCGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
EST: gi|58018996|gb|CX705738.1|CX705738
EST:     GTGGAATATAGTATCAAAGAAAATTATGGTTTCNCCAGGAAAAGGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAA
genomic: GTGGAATATAGTATCAAAGAAAA-TATGGTTTCACCAGGAAAA-GGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAA
EST: gi|51337031|gb|CO980897.1|CO980897
EST:     TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
EST: gi|298180981|gb|HO022420.1|HO022420
EST:     TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGTAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
EST: gi|151402430|gb|EV272243.1|EV272243
EST:     TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAG                         ATATTAATTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT
genomic: TTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaat ... ttgcatacagATATTATTTGACAATAAGCAATACTACAAATTCTTGGGGAAGGATATAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTTAAGGAGTCAAAGATTGTGGAATATAGTATCAAAGAAAATATGGTTTCACCAGGAAAAGGAGAGgttagtaaatctggtatcacttaatgtagaatttagcgcttcagttttttgttctgctaaaaaggttcaagtgcttgcttgatctcttactggaagatccaaattgatgaatgttgcatacag

- - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA