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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaactaacatgttccttcactcattcattagtgtagctgattactggttatctacagtgtatctcttatgatttaaaaaacatgaattatacaattatctgtttaagctttttatattaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCTCTATACCGCATTCGCTTATGGGGGACCTGCACTTATTCCTCAGATAAAG

Basic information

species Glycine max
transcript GLYMA20G23670.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G23670.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0042g00140.t01 (Vitis vinifera), 3'ss of exon 9
gtaaaa-actaacatgttccttcactcattcattagtgtagctgattactggttatctacagtgtatctcttatgatttaaaaaacatgaattatacaattatctgtttaagctttttatattaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCTCTATACCGCATTCGCTTATGGGGGACCTGCACTTATTCCTCAGATAAAG
|||||| |    ||    | |    ||||  |    ||| | | ||   ||  ||| || | | |    |||    ||   ||  | |   || |       | ||||| |  | ||     |  || ||||| |||||||||||||| ||||||||||| ||||||||||| |||||||| |||||    || ||||||| ||| ||||| ||||||||||| ||||||
gtaaaatatcggcacaaccttgtcatcatg-acagctgtgggtcatatgtgtatatatata-tattcacctt----ttctgaagtcttttttttttttgaactttgtttgatatgtt-----tggttcagTGGTGAAGATGCATATAAAAAAATACGAGCAGGAGCAACTCTTGTTCAGCTTTATACACAGTTTGCTTATGAGGGTCCTGCCCTTATTCCTCAAATAAAG
















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|58022739|gb|CX709480.1|CX709480
EST:     GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
EST: gi|26058429|gb|CA801343.1|CA801343
EST:     GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
EST: gi|208178983|gb|GD980056.1|GD980056
EST:     GGCCGGGTTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
EST: gi|17022514|gb|BM093548.1|BM093548
EST:     GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
EST: gi|23729053|gb|BU762606.1|BU762606
EST:     GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
EST: gi|58019265|gb|CX706007.1|CX706007
EST:     GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
EST: gi|58016319|gb|CX703061.1|CX703061
EST:     GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAG                         TGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT
genomic: GGCCGGATTCCTTTGATTGGCTGTGGGGGCATTAGCAGgtaaaaacta ... attaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttaaaaaacatgaattatacaattatctgtttaagctttttatattaatttagTGGGGAAGATGCATATAAGAAAATACGAGCTGGAGCAACTCTAGTTCAGCTCTATACCGCATTCGCTTATGGGGGACCTGCACTTATTCCTCAGATAAAG
                                            tattaat  putative branch site (score: 2)
              aattatacaattatct  TA-rich tract