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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAAAGTTAAATCCTGAGATTCGTTATGTGCAAGGCATGAACGAGGTCTTGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattttccctgcataatttattatgtgatttgtggcagttcccattgtttttctttagctaggttaaatgcatggtatatatgatgacgcagaaa...

Basic information

species Glycine max
transcript GLYMA13G23560.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G23560.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g05350.t01 (Vitis vinifera), 5'ss of exon 6
TGCAAAGTTAAATCCTGAGATTCGTTATGTGCAAGGCATGAACGAGGTCTTGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattttccctgcataatttattatgtgatttgtggcagttcccattgtttttctttagctaggttaaatgcatggtatatatgatgacgcagaaa------
||| ||  |||||||||  || |||||||||||||||||||| || || |||||||||||||||||| |||||||||||||| | ||| ||||||||||||||||  |||||     | ||  | ||       ||    || |         |||||||||||| |   |  |  |||   ||| | || ||             
TGCTAAACTAAATCCTGCAATCCGTTATGTGCAAGGCATGAATGAAGTATTGGCACCAATATACTATATATTTAGTACTGACACTGACGAGCAAAATGCTgtaagagttttctgcaaagaagctgtt------cttactccattcttttgaaattttctttagcttgagaatgtctatgaattattttattacctttcttttatat
















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|208185655|gb|GD986298.1|GD986298
EST:     TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCT                         GCAAATGTAGAAGCAGATAGTTTTTCT-GTTT-GTTCGAATCTTGGGTGAC
genomic: TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattt ... tttctattagGCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC
EST: gi|208285383|gb|GE086057.1|GE086057
EST:     TGGCACCAATATACTATGTATTTAGTACCGACCCCGACAAGCAAAATGCT                         GCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC
genomic: TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattt ... tttctattagGCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC
EST: gi|208122096|gb|GD919021.1|GD919021
EST:     TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCT                         GCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC
genomic: TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattt ... tttctattagGCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC
EST: gi|208191140|gb|GD991928.1|GD991928
EST:     CGACAAGCAAAATTGCT                         GCAAATGTAGAAACAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGA
genomic: CGACAAGCAAAA-TGCTgtaagcattt ... tttctattagGCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGA
EST: gi|193545261|gb|FK499484.1|FK499484
EST:     TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCT                         GCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC
genomic: TGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattt ... tttctattagGCAAATGTAGAAGCAGATAGTTTTTCTTGTTTTGTTCGAATCTTGGGTGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAAAGTTAAATCCTGAGATTCGTTATGTGCAAGGCATGAACGAGGTCTTGGCACCAATATACTATGTATTTAGTACTGACCCCGACAAGCAAAATGCTgtaagcattttccctgcataatttattatgtgatttgtggcagttcccattgtttttctttagctaggttaaatgcatggtatatatgatgacgcagaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA