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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtgttctctattattcatgaacgtcataaattcagtgcgcatgaagtttgacattttggtttgatagGTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAATTCCAATATTCAGG

Basic information

species Glycine max
transcript GLYMA02G32100.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g24220.2 (Oryza sativa), 3'ss of exon 5
--gtatagtgtt----ctctattattcatgaacgtcataaattcagtgcgcatgaagtttgacattttggtttgatagGTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAATTCCAATATTCAGG
  |  || | ||    |||  |  ||| |  ||  | | |  ||     |    |      | || |    |    |||| || |||||  | || |||||||| ||||| |||||||| ||  | || ||  | || || || |||||||||||||||||||| ||||||||||| |
gtgactactatttcacctccctgtttcttagactactttatctcctcatgttatatacactaaatgtcctatattcagGTTCCATTTGCTCGCTCGTCATTGAATCATGATGATGTATTTATCTTGGATACGGAAAAGAAAATATATCAATTCAATGGTGCAAACTCCAATATTCAAG

upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
---gtatagtgttctc---tattattcatgaacgtcataaattcagtgcgcatgaagtttg------acattttggtttgatagGTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAATTCCAATATTCAGG
   ||||| | | |     | |  ||||||| |     |  |||| || || || || | |       ||||||||||    ||||||| |||||  |||||||| | || || || ||||| || || || |||||  | ||||| |||||||| ||||||||||||||||||||||| ||||
gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgc-tgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
















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|22931110|gb|BU548249.1|BU548249
EST:     AAACATGTTTGTATGTATGCAGAGGGAAAAGAGTTGTTAGATTGAGACAG                         GTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGAC
genomic: AAACATGTTTGTATGTATGCAGAGGGAAAAGAGTTGTTAGATTGAGACAGgtatagtgtt ... ggtttgatagGTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcatgaacgtcataaattcagtgcgcatgaagtttgacattttggtttgatagGTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAATTCCAATATTCAGG
                                 gtttgac  putative branch site (score: 4)
           tcataaatt  TA-rich tract