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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTGCTGCAAGTCACTTCAACAACTGGCTTCTCTGGCTAATCTATTGGCCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaattaatttgttgttacttttttgttataatatgaatctcacacactgctttgttatgcctacctcatttcatttggctttagacaacttaaatttgagatctttattatgttttttgcttatatggtaaagtgattcattcttcacattgaattgaacag

Basic information

species Glycine max
transcript GLYMA14G37350.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G37350.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 2
TGGCTGCTGCAAGTCACTTCAACAACTGGCTTCTCTGGCTAATCTATTGGCCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaattaattt-----gttgttacttttttgttataatatgaatctcacacactgctttgttatgcctacctcatttcatttggctttagacaacttaaatttgagatctttattatgttttttgcttatatggtaaagtgattcattcttcacattgaattgaacag
  |  ||||| | | |||   ||| |||| |  | |||| | | || ||| |    || || ||||||||||||||  ||||||||||||||||||| ||||||| | |||||||      || || || ||| |||   |    |   |   | | |         |      || |  || |     || |     |||                                                                       
CAGTGGCTGCCATTTACTCGGACAGCTGGTTGGTTTGGCCACTGTACTGGGCTGCCCAGGGGACAATGTTCTGGGCATTGTTTGTTCTTGGACATGACTGgtaatcacttaattttagccattatttctgtttggttgctaagaaatggtggtaaaataaaagaaagtaaaactcttacctc-tactttttcaagtttctt-----------------------------------------------------------------------

upper sequence: GLYMA14G37350.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv06s0004g06720.t01 (Vitis vinifera), 5'ss of exon 2
TGGCTGCTGCAAGTCACTTCAACAACTGGCTTCTCTGGCTAATCTATTGGCCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaattaatttgt-----tgttacttttttgttataatatgaatctcaca----------cactgctttg--ttatgcctacctcatttcatttgg---ctttagacaacttaaatttgagatctttattatgt-tttttgcttatatggtaaagtgattcattcttcacattgaattgaacag-
     || || |   ||||  |||  ||| |  | |||| | |||| ||| |    || ||||||||||||||||| |||||||||||||||||||| ||||||| |  |  | | |     |  | |||  ||| |   | |||    | | |          ||   |||    |  | | |      |||| ||  |   | | | | || || | ||||     ||| ||  ||  |||||   ||    |  | || | | ||||| |  || | ||    |  
CTATAGCAGCTATATACTTGGACAGATGGGTGGTTTGGCCACTCTACTGGGCTGCCCAGGGAACAATGTTCTGGGCCCTGTTTGTTCTTGGACATGACTGgtaatcacatggtctttacactttctgcttggttgctgagaaatggtagtaaaagaaaagaaagcaaaacttgaaatcctacttcttcagtttctttcagtaacgtaatataattttactttgcttcttttgttgagtgcttttggcaatgaacttgaatg-tcctttcttgatttttattttttgaag
















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|16348656|gb|BI974251.1|BI974251
EST:     CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTG                         TGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
genomic: CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaatt ... aattgaacagTGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
EST: gi|213603629|gb|DB966785.1|DB966785
EST:     CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTG                         TGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
genomic: CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaatt ... aattgaacagTGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
EST: gi|7924236|gb|AW830262.1|AW830262
EST:     CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTG                         TGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTG
genomic: CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaatt ... aattgaacagTGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTG
EST: gi|17519247|gb|BM188289.1|BM188289
EST:     GTTCTGGGCTCTGTTTGTTCTTGGACATGATTG                         TGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
genomic: GTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaatt ... aattgaacagTGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
EST: gi|5753666|gb|AI960953.1|AI960953
EST:     CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTG                         TGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA
genomic: CCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaatt ... aattgaacagTGGCCATGGAAGCTTTTCAGACAGCCCTTTTCTAAATAGCCTGGTGGGACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCTGCTGCAAGTCACTTCAACAACTGGCTTCTCTGGCTAATCTATTGGCCCATTCAAGGAACAATGTTCTGGGCTCTGTTTGTTCTTGGACATGATTGgtaattaattaatttgttgttacttttttgttataatatgaatctcacacactgctttgttatgcctacctcatttcatttggctttagacaacttaaatttgagatctttattatgttttttgcttatatggtaaagtgattcattcttcacattgaattgaacag

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