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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactaatgctttccccttacttcttctggcttggatgagctcatcagtatgattttatctacattaatatttgtataattgcagTGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTGCAGGGGTTAACCCTGTTATTATCCGCCGTCTCCAA

Basic information

species Glycine max
transcript GLYMA20G28290.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28290.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0020g03170.t01 (Vitis vinifera), 3'ss of exon 4
---------gtatactaatgctttcccctta-cttcttctggcttggatga------gctcatcagtatgatt--ttatct---acattaatatt--------tgt---ataattgcagTGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTGCAGGGGTTAACCCTGTTATTATCCGCCGTCTCCAA
          | |  | | |  |  |  ||  |||    | | |||||           | |  | |||  ||  | ||||   | ||||||  |        |||   ||| ||||||  | ||  || || |||||||||||||| || |||| | | |||||||| ||||| || ||||||||||| ||||| || ||  ||
gtaaatagattttgtttaggtatctcatttggctttcaataggttggagacttcaatatttactaatattcttaatcatcttgcatattaattatgaggctactgtcaaatacttgcagAAAATACTACTGCTTGGAGGACAGATGAAGAGTTTGGACGAGAAATGCTGGCAGGAGTAAACCCTGTTATAATCCGTCGCCTAGAA
















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|9986168|gb|BE660276.1|BE660276
EST:     GAATGATGGTGAGAGATTCCTCAAATTCCCAGTGCCTGATGTGATCAAAG                         TGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTG
genomic: GAATGATGGTGAGAGATTCCTCAAATTCCCAGTGCCTGATGTGATCAAAGgtatactaat ... ataattgcagTGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTG
EST: gi|15203969|gb|BI426746.1|BI426746
EST:     GAATGATGGTGAGAGATTCCTCAAATTCCCAGTGCCTGATGTGATCAAAG                         TGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTG
genomic: GAATGATGGTGAGAGATTCCTCAAATTCCCAGTGCCTGATGTGATCAAAGgtatactaat ... ataattgcagTGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttggatgagctcatcagtatgattttatctacattaatatttgtataattgcagTGAGTAAGACAGCATGGAGGACAGATGAGGAATTTGCAAGGGAAATGCTTGCAGGGGTTAACCCTGTTATTATCCGCCGTCTCCAA
                                cattaat  putative branch site (score: 3)
                agtatgattttatcta  TA-rich tract