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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTCTTTTGTTGGAGCCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctcctcttcactcattatatgtggtggtaataaatgattttattttctactcataactaatttatatatcttggatttgataactgcag

Basic information

species Glycine max
transcript GLYMA12G09250.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G09250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g00480.t01 (Vitis vinifera), 5'ss of exon 4
GCTTCTTTTGTTGGAGCCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctcctcttca-ctcattatat-gtggtggtaataaatgattttattttctactcataac--taatttata-tatcttggatttga-taactgcag-----------------
|| || ||| ||||||| ||||| ||||||||| | || ||||||||||| |||||||||||||||||||| |   ||  ||| |||  | ||| |  |   ||  |  || || | | ||  | |  || |  |  ||| || | |  |  |||||  ||  ||                    
GCGTCCTTTATTGGAGCAATGGCGATTGCTGACCTGGTTAAGACAACCTTAGGGCCAAAGGGAATGgtaaacttctcttctcatctccctttattgctgaattagaagctgtttgtgtctttaagtattagccttggtttgtaatttgattaatttgtctatttgttaatgtgtcttctctgcag
















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|7591500|gb|AW707232.1|AW707232
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
EST: gi|207783070|gb|GD751071.1|GD751071
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
EST: gi|7587973|gb|AW703779.1|AW703779
EST:     TTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: TTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
EST: gi|193729723|gb|FK664669.1|FK664669
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTAC
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTAC
EST: gi|192302430|gb|FG996684.1|FG996684
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGC
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGC
EST: gi|15200734|gb|BI424502.1|BI424502
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
EST: gi|213601247|gb|DB956527.1|DB956527
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCTAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
EST: gi|261497099|gb|GT185167.1|GT185167
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
EST: gi|208198857|gb|GD998538.1|GD998538
EST:     CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATG                         GATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT
genomic: CCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctc ... ataactgcagGATAAAATTTTGCAGTCAACAGGTAGAGGACGTGAAGTTACTGTCACGAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTCTTTTGTTGGAGCCATGGCTATTGCTGACTTAGTGAAGACAACCTTGGGGCCAAAGGGAATGgtaaaatctcctcttcactcattatatgtggtggtaataaatgattttattttctactcataactaatttatatatcttggatttgataactgcag

- - - - - - - - - - - - - - - - - -  TGAAGA