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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaaaaaaaaactaattataatggcatttgttgtcgttatgtttgattatataattgaaagatggtattagcaaattcgtttattgctatatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCTCCTTACGATTGTATGTTTCTGTTTAAGCCACATATTAGGAAGGAAGCCG

Basic information

species Glycine max
transcript GLYMA16G08440.2
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|298190034|gb|HO032155.1|HO032155
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
EST: gi|151394628|gb|EV264499.1|EV264499
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
EST: gi|22931735|gb|BU548874.1|BU548874
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
EST: gi|14259211|gb|BG882119.1|BG882119
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
EST: gi|298185226|gb|HO030439.1|HO030439
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
EST: gi|298196168|gb|HO044559.1|HO044559
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
EST: gi|18039599|gb|BM307893.1|BM307893
EST:     GAGCTTCGATTTCATAGGCGGCGTTGAAG                         ATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT
genomic: GAGCTTCGATTTCATAGGCGGCGTTGAAGgtacgatttt ... tatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattatataattgaaagatggtattagcaaattcgtttattgctatatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCTCCTTACGATTGTATGTTTCTGTTTAAGCCACATATTAGGAAGGAAGCCG
 gtttgat  putative branch site (score: 5)
 tataattgaaagat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaaaaaaaaaactaattataatggcatttgttgtcgttatgtttgattatataattgaaagatggtattagcaaattcgtttattgctatatgatgcagATAGATAGTTAGCTGACTTGGCTGCCCCTGAGCAGGAGGAATAAGATGCCTCCTTACGATTGTATGTTTCTGTTTAAGCCACATATTAGGAAGGAAGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
aaaaaaa
- - - - - - - - - - - - - - -tgttgtc
- - - - - - - - - - - - - - - - - - - -atgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatggta