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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgacctctcctctccctctcttcttcattcaccactaagccaaccttatatctccattgccaacctttgatattgttaattctttaaatattttccagTTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTGGGCTATCCTGTAAAGCTTGGAAGTGGAGTTGCTGCTGCCAGTGCATACT

Basic information

species Glycine max
transcript GLYMA18G14740.1
intron # 4
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|192312355|gb|FK005359.1|FK005359
EST:     AAGTTGCTGGGAAG-TTTTCAGAATTGGACATCTTGGCA-CTTGA-TGAG                         TTGCA-CTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGAT
genomic: AAGTTGCTGGGAAGGTTTTCAGAATTGGACATCTTGGCAACTTGAATGAGgtaatgttga ... tattttccagTTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGAT
EST: gi|192312356|gb|FK005360.1|FK005360
EST:     AAGTTGCTGGGAAG-TTTTCAGAATTGGACATCTTGGCA-CTTGA-TGAG                         TTGCA-CTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTG
genomic: AAGTTGCTGGGAAGGTTTTCAGAATTGGACATCTTGGCAACTTGAATGAGgtaatgttga ... tattttccagTTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTG
EST: gi|31466490|gb|CD408518.1|CD408518
EST:     AAATTGCTGGGAAGGTTTTCAGAATTGGACATCTGGGCAACTTGAATGAG                         TTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTG
genomic: AAGTTGCTGGGAAGGTTTTCAGAATTGGACATCTTGGCAACTTGAATGAGgtaatgttga ... tattttccagTTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTG
EST: gi|7795420|gb|AW780745.1|AW780745
EST:     AAGTTGCTGGCAAGGTTTTCACAATCGGACATCTTGGCAACTTGAATGAG                         TAGCATCTGTTGGGATGT
genomic: AAGTTGCTGGGAAGGTTTTCAGAATTGGACATCTTGGCAACTTGAATGAGgtaatgttga ... tattttccagTTGCAACTGTTGGGATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttatatctccattgccaacctttgatattgttaattctttaaatattttccagTTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTGGGCTATCCTGTAAAGCTTGGAAGTGGAGTTGCTGCTGCCAGTGCATACT
                              tgttaat  putative branch site (score: 3)
                                             tattttcc  putative PPT
                      tttgatattgttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgacctctcctctccctctcttcttcattcaccactaagccaaccttatatctccattgccaacctttgatattgttaattctttaaatattttccagTTGCAACTGTTGGGATGTCTAGCTGGTGTGGAGATGATACTGAAAGATGTGGGCTATCCTGTAAAGCTTGGAAGTGGAGTTGCTGCTGCCAGTGCATACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
catgacc
- - - - - -ctctccc
- - - - - - - - - - -cttcttc
- - - - - - - - - - - - - - - tcaccac
- - - - - - - - - - - - - - - - - - - - -ccaacct