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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctaattactggttaagtatacaagagataatttgtagattaatcaatgtaagaaatgaaatttctatgcatgttatgtgatgctttgattcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG

Basic information

species Glycine max
transcript GLYMA08G07960.1
intron # 1
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|151410591|gb|EV280406.1|EV280406
EST:     CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298199306|gb|HO042669.1|HO042669
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298184831|gb|HO030044.1|HO030044
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCGG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|192328547|gb|FK023551.1|FK023551
EST:     CAGTTTGCTTGCACCGATGATATCTCAACAAACGTTGCCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298167316|gb|HO010755.1|HO010755
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|254330221|gb|GR839774.1|GR839774
EST:     CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298164922|gb|HO010919.1|HO010919
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298167948|gb|HO013211.1|HO013211
EST:     CAGTTTGCTTGCACCGAGGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|22541663|gb|BU091506.1|BU091506
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|193422725|gb|FK385942.1|FK385942
EST:     AGTTTGCTTGCACCGATGATAGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: AGTTTGCTTGCACCGATGATA-TCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298178170|gb|HO023905.1|HO023905
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
EST: gi|298187812|gb|HO031769.1|HO031769
EST:     CAGTTTGCTTGCACCGATGATGTCTCAACAAACGTCGTCACCGCCGAGAG                         GCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
genomic: CAGTTTGCTTGCACCGATGATATCTCAACAAACGTCGCCACCGCCGAGAGgtaacagttt ... tcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtaagaaatgaaatttctatgcatgttatgtgatgctttgattcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG
                                      ctttgat  putative branch site (score: 5)
                                            ttcttgt  CT-rich tract
        aaatgaaatttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctaattactggttaagtatacaagagataatttgtagattaatcaatgtaagaaatgaaatttctatgcatgttatgtgatgctttgattcttgtgcagGCTAGTTAGAGCTGCACATAAACAGGGTGCGAACATCATTCTCATTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - -actggtt
- - - - - - - - - - - - - - - - - - - - - - caatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgct