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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGAAAATCTTCTTCTTGATGCTTACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatatacttgtaaaattggagataatgattggtttcatcacacttgtcatcttgtctttgctttgtctctggataatgatttttggaaatagcagaagctgcagactaatatcttccatcttttcctctccgtctttcttttttatag

Basic information

species Glycine max
transcript GLYMA17G12250.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G12250.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv11s0016g05420.t01 (Vitis vinifera), 5'ss of exon 6
CCTGAAAATCTTCTTCTTGATGCTTACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaat-atacttgtaaaattggagataatgat-tggtttcatcacacttgtcatcttgtctttgctttgtctctggataatgatttttggaaatagcagaagctgcagactaatatcttccatcttttcctctccgtctttcttttttatag
||||||||||| ||||||||| |  | |||||||||||||||||||| |||||| | ||||||||| ||||||| ||||| || ||  || |    ||| |    ||||    |  | ||    | | | | ||| |   ||   ||  | ||  |  | | | |      ||    ||  | ||    |                                        
CCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAAgtaagcatgattgtttttgttttgcaccagatgacactggataattctgcctttaaccttataaatg---tgcgtgtgtgtgctcactctattgtttatgttaatatccatgtcag---------------------------------------
















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|207706500|gb|GD688000.1|GD688000
EST:     ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
genomic: ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
EST: gi|254322068|gb|GR837482.1|GR837482
EST:     ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAA-CTATGTTGCCCCT
genomic: ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
EST: gi|151394038|gb|EV263909.1|EV263909
EST:     ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
genomic: ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
EST: gi|208045634|gb|GD838936.1|GD838936
EST:     AAATTTGAAGGTTTTCTTGTACTTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
genomic: AAATTTGAAGG-TTTC-TG-AC-TTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTGAAAATCTTCTTCTTGATGCTTACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatatacttgtaaaattggagataatgattggtttcatcacacttgtcatcttgtctttgctttgtctctggataatgatttttggaaatagcagaagctgcagactaatatcttccatcttttcctctccgtctttcttttttatag

- - - - - - - - - - - - - - - -  TTGAAG