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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatacatgtccgtgtgttagggtctttctaattagaaaaatctttttgtgcaattttcttcctctctcccttttaattaatatttttcatgctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG

Basic information

species Glycine max
transcript GLYMA06G09320.1
intron # 9
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|254330797|gb|GR842062.1|GR842062
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|7234013|gb|AW569354.1|AW569354
EST:     GAAACAAATTACTTCAAGATGTTGGTGTATGGATATCTCACAAGATTAAA                         GATCACTTTGCAAGGAAGGATAAA
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAA
EST: gi|57576052|gb|CX549023.1|CX549023
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|7234213|gb|AW569552.1|AW569552
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|254334741|gb|GR844526.1|GR844526
EST:     GGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|298176657|gb|HO026778.1|HO026778
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|254320046|gb|GR830962.1|GR830962
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|207733299|gb|GD710507.1|GD710507
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACCTTGCAAGGAAGGATAAGATGCCCATCAATCTTAAATATATAGAT
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAGAT
EST: gi|193382046|gb|FK348491.1|FK348491
EST:     GAA-CAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTT-GCAAGG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGG
EST: gi|193351916|gb|FK315455.1|FK315455
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAA-TGCCCATCAATCTTAAATATATAG
EST: gi|208260274|gb|GE060640.1|GE060640
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
EST: gi|58024605|gb|CX711346.1|CX711346
EST:     GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAG                         GATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
genomic: GAAACAAATTACTTCAAGATGTTGGTTTATGGATATCTCACAAGATTAAGgtattgttgt ... gctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgcaattttcttcctctctcccttttaattaatatttttcatgctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG
                             aattaat  putative branch site (score: 3)
                         ttttaattaatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatacatgtccgtgtgttagggtctttctaattagaaaaatctttttgtgcaattttcttcctctctcccttttaattaatatttttcatgctgtaatagGATCACTTTGCAAGGAAGGATAAAATGCCCATCAATCTTAAATATATAG

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