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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttttttagctgttttattgaatctaccatagttgatgaaggtattttgtttcatagtttgcacacaccataaagcttagtttttattttcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG

Basic information

species Glycine max
transcript GLYMA04G40740.1
intron # 6
splice site 3'
intron type U2

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|193539697|gb|FK498639.1|FK498639
EST:     GGCGGGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAG                         TTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
genomic: GGCGGGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAGgtgggtccat ... tcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
EST: gi|207762279|gb|GD731600.1|GD731600
EST:     CGGGGGTCGTTATGGCATCTCACGCCATTCTGAATTTCGAG                         TTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
genomic: CGGGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAGgtgggtccat ... tcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
EST: gi|193325939|gb|FK291022.1|FK291022
EST:     GGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAG                         TTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
genomic: GGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAGgtgggtccat ... tcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
EST: gi|193350079|gb|FK315753.1|FK315753
EST:     TGGAGCAGGCGGGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAG                         TTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
genomic: TGGAGCAGGCGGGGGTCGTTTTGGCATCTCACGCCATTCTGAATTTCGAGgtgggtccat ... tcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtttcatagtttgcacacaccataaagcttagtttttattttcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG
                                    tttttattttcatct  CT-rich tract
                         ataaagcttagttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttttttagctgttttattgaatctaccatagttgatgaaggtattttgtttcatagtttgcacacaccataaagcttagtttttattttcatctacagTTATTGTTCGTGGACTCCCATCTTCTGCATCTTGGCAAGATTTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - -gctgttt
- - - - - - - - - - - -tctacca
- - - - - - - - - - - - - - - - gttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacacc