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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatcatgtaaaactttttagactataagtgcatatactatttactctactcttatactctttaactcaattatgaaaaatactgatacttttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCTAATACAGCACTTGACAACTTGGAACCCAATG

Basic information

species Glycine max
transcript GLYMA14G10180.1
intron # 6
splice site 3'
intron type U2

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|58022718|gb|CX709459.1|CX709459
EST:     CATTAGCTGGCATGCNTAGTACATCGTCACAATTCCCTCCTTTGCCACAG                         AATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
genomic: CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAGgtaaaaagag ... ttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
EST: gi|58014517|gb|CX701259.1|CX701259
EST:     CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAG                         AATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
genomic: CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAGgtaaaaagag ... ttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
EST: gi|151399817|gb|EV269688.1|EV269688
EST:     CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGC-ACAG                         AATGTTT-GGAC-ACGAGTTCCAAAGCTTCTATGGA-TTGGAT
genomic: CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAGgtaaaaagag ... ttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGAT
EST: gi|58019678|gb|CX706420.1|CX706420
EST:     CATTAGCTGGCATGCNTAGTACATCGTCACAATTCCCTCCTTTGCCACAG                         AATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
genomic: CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAGgtaaaaagag ... ttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
EST: gi|254342153|gb|GR853290.1|GR853290
EST:     CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAG                         AATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
genomic: CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAGgtaaaaagag ... ttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
EST: gi|58018231|gb|CX704973.1|CX704973
EST:     CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAG                         AATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT
genomic: CATTAGCTGGCATGCCTAGTACATCGTCACAATTCCCTCCTTTGCCACAGgtaaaaagag ... ttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctactcttatactctttaactcaattatgaaaaatactgatacttttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCTAATACAGCACTTGACAACTTGGAACCCAATG
                                  tactgat  putative branch site (score: 2)
                                        tactttt  CT-rich tract
              tttaactcaattatga  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatcatgtaaaactttttagactataagtgcatatactatttactctactcttatactctttaactcaattatgaaaaatactgatacttttacatgcagAATGTTTTGGACCACGAGTTCCAAAGCTTCTATGGAATTGGATACGATTCTAATACAGCACTTGACAACTTGGAACCCAATG

- -catgtaa
- - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatac