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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCACTGAGAAGTCTGATGTGTACAGTTATGGTATTGTTTTACTCGAGTTGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagtttactacaaatttgaatacaagcgtgcgtgtatacacacatgctgacggattagccttggtcttttatgaacttaggtatatatttattgctct...

Basic information

species Glycine max
transcript GLYMA14G11220.2
intron # 26
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G11220.2 (Glycine max), 5'ss of exon 26
lower sequence: AT2G26330.1 (Arabidopsis thaliana), 5'ss of exon 26
TCTCACTGAGAAGTCTGATGTGTACAGTTATGGTATTGTTTTACTCGAGTTGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagtttactacaaatttgaatacaagcgtgcgtgtatacacacatgctgacggattagccttggtcttttatgaacttaggtatatatttattgctct
||||||||||| || ||||| ||||||||||| || || | || |||||| |||| |||||||||| ||||| | |||||||| ||||||||||| || ||| | ||| || | | | | | | || |||| ||| || | | | || ||
GCTCACTGAGAAATCCGATGTCTACAGTTATGGAATAGTCCTTCTTGAGTTGTTAACCCGAAGGAAAGCCGTTGATGACGAATCCAATCTCCACCATCTGgtttgttcttt-----cttgcctatctctctcagctgctctgtttaggtcaagtccgtaatcttg--ttttcattgattcacttacatcag---------

upper sequence: GLYMA14G11220.2 (Glycine max), 5'ss of exon 26
lower sequence: Vv04s0008g01970.t01 (Vitis vinifera), 5'ss of exon 26
TCTCACTGAGAAGTCTGATGTGTACAGTTATGGTATTGTTTTACTCGAGTTGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagt---ttactacaaatttgaatacaagcgtgcgtgtatacacacatgctgacggattagccttggtcttttatgaacttaggtatatatttattgctct
|||||| || ||||||||||| ||||| ||||| |||||| |||| ||| |||| |||||||||||||| || |||||||||||||| ||||| ||||| |||| | | || ||| | | | | ||||| || | | | | | | ||||||| | | || | || ||
TCTCACGGAAAAGTCTGATGTCTACAGCTATGGAATTGTTCTACTTGAGCTGCTGACTGGAAGGAAAGCAGTAGACAATGAATCCAATCTCCATCATCTGgtaaatcaatcgcttttggtttctacttgaaccttcgtgtctattgaattccatttagcatgaga--aattttttatgctagacgacaaatgatagttaatc-
















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|22928808|gb|BU545947.1|BU545947
EST:     TGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTT                         ATTTTGTCCAAGGCAGCAACCAATGCTGTGATGGAAACAGTTGATCCCGAC
genomic: TGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagtttac ... atttgtgtagATTTTGTCCAAGGCAGCAACCAATGCTGTGATGGAAACAGTTGATCCCGAC
EST: gi|8284855|gb|BE022414.1|BE022414
EST:     TGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTT                         ATTTTGTCCAAGGCAGCAACCAATGCTGTGATGGAAACAGTTGAT
genomic: TGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagtttac ... atttgtgtagATTTTGTCCAAGGCAGCAACCAATGCTGTGATGGAAACAGTTGAT
EST: gi|208189657|gb|GD992265.1|GD992265
EST:     TGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTT                         ATTTTGTCCAAGGCAGCAACCAATGCTGTGATGGAAACAGTTGATCCCGAC
genomic: TGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagtttac ... atttgtgtagATTTTGTCCAAGGCAGCAACCAATGCTGTGATGGAAACAGTTGATCCCGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTCACTGAGAAGTCTGATGTGTACAGTTATGGTATTGTTTTACTCGAGTTGCTAACTGGAAGGAAAGCTGTTGACAATGAATCCAACCTCCACCATCTTgtaagtttactacaaatttgaatacaagcgtgcgtgtatacacacatgctgacggattagccttggtcttttatgaacttaggtatatatttattgctct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT