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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTTTGGGGATTGCAGAAACATTTGAGTTGGATATCAGCATCACAAAGAAACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggcttttcctttgtttagagctacttgaaagaaatattaatttattttgaatatcaacatcatgctgatgattatatggtttgtttag

Basic information

species Glycine max
transcript GLYMA14G05810.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G05810.2 (Glycine max), 5'ss of exon 8
lower sequence: Vv12s0057g01240.t01 (Vitis vinifera), 5'ss of exon 8
CTTTTTGGGGATTGCAGAAACATTTGAGTTGGATATCAGCATCACAAAGAAACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggcttttcctttgtttagagctacttgaaagaa-----atattaatttattttgaatatcaacatcatgctgatgattatatggtttgtttag----------------------------------
                  |||||||||| | ||||| |||| ||||||||| |||||||||||||| || ||  |||||||||   | | ||  ||||||||  ||| |||| | ||| || | |   |      | |      | |||| ||  || || ||   |   |  |  ||   |  | |   ||  | | |                                  
-----------------CAACATTTGAGGTTGATATTAGCAACACAAAGAAGCTTCTTGAAGGAGAACGTGGTGAAATAATCCGTCAAAAAGATATAATTgtgagtgacttt-cttttattcataatcatccagtaaaccgtatacattatttgcttgtgcatgctatgcttcttgtgtgaaggaaagaattcatcttgttcccttcacttagttttaattccggatcttcag
















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|193417746|gb|FK384250.1|FK384250
EST:     AAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATT                         ATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
genomic: AAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggct ... gtttgtttagATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
EST: gi|120496950|gb|EH225117.1|EH225117
EST:     AACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATT                         ATGGTTGGGGAATCTG
genomic: AACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggct ... gtttgtttagATGGTTGGGGAATCTG
EST: gi|31309484|gb|CD394687.1|CD394687
EST:     GAGCGAGGCAAAATAATCCACGAGAGAGGCATAATT                         ATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
genomic: GAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggct ... gtttgtttagATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
EST: gi|193362895|gb|FK327469.1|FK327469
EST:     AAGGAGAGCGAGGTCTAAAATTAATTCCACGAGAGAGGCATAATT                         ATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
genomic: AAGGAGAGCGAGG-C-AAAA-TAA-TCCACGAGAGAGGCATAATTgtatgtggct ... gtttgtttagATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
EST: gi|31312366|gb|CD397569.1|CD397569
EST:     GAGAGGCATAATT                         ATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
genomic: GAGAGGCATAATTgtatgtggct ... gtttgtttagATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
EST: gi|120496969|gb|EH225136.1|EH225136
EST:     AACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATT                         ATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG
genomic: AACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggct ... gtttgtttagATGGTTGGGGAATCTGGTCTCTTTACCCCGGACGATATTGCCTATGTTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTTTGGGGATTGCAGAAACATTTGAGTTGGATATCAGCATCACAAAGAAACTTCTTGAAGGAGAGCGAGGCAAAATAATCCACGAGAGAGGCATAATTgtatgtggcttttcctttgtttagagctacttgaaagaaatattaatttattttgaatatcaacatcatgctgatgattatatggtttgtttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG