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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgatattttatatgaaaccttaatttgttcctacacatgactctttatatatatcatatctgatgataatagcatatatgtttgcttacttggtattatattgttttctactttactttcatcagCTTCTTCAAGCAGTTTCCTCACCCGGATGACAAGCAAAGAAAAGAGCTGAGCCGTGAGCTGGGGTTAGAGCCTTTGCAAGTCAAGTTTTGGTTCCAAAAC

Basic information

species Glycine max
transcript GLYMA11G00570.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G00570.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0116g00680.t01 (Vitis vinifera), 3'ss of exon 1
gtacgtgatattttatatgaaaccttaatttgttcctacacatgactctttatatatatcatatctgatgataatagca-tatatgtttgcttacttggtattatattgttttctactttactttcatcagCTTCTTCAAGCAGTTTCCTCACCCGGATGACAAGCAAAGAAAAGAGCTGAGCCGTGAGCTGGGGTTAGAGCCTTTGCAAGTCAAGTTTTGGTTCCAAAAC
                        | | |||  ||||||       | |   || |    |   || |  |   ||| | |  |||||||     ||| ||  | |  |        |||   ||| |||| ||||||||| |||  ||||| || ||||| ||||||||||| ||| ||||||||||  | ||||| |||||||| |||||||| |||||||||||||||
-----------------------gtaagttttctcctactt-----tttcagtagaagggaaggctcagtagcctagtaattcatgtttgacgttttgatacaagaggg------gttttgtgttcctcagTTTCTTCAAGGAGTGCCCTCATCCAGATGATAAGCAAAGAAAGGAGTTGAGCCGTGAATTAGGGTTGGAGCCTTTACAAGTCAAATTTTGGTTCCAAAAC
















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|207693302|gb|GD675997.1|GD675997
EST:     AAGAAGGGTTACCGCCGCCACACACAGCGCCAAATAGAAGAAATGGAAGC                         CTTCTTCAAGCAGTTTCCTCACCCGGATGACAAGC
genomic: AAGAAGGGTTACCGCCGCCACACACAGCGCCAAATAGAAGAAATGGAAGCgtacgtgata ... ctttcatcagCTTCTTCAAGCAGTTTCCTCACCCGGATGACAAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcatatatgtttgcttacttggtattatattgttttctactttactttcatcagCTTCTTCAAGCAGTTTCCTCACCCGGATGACAAGCAAAGAAAAGAGCTGAGCCGTGAGCTGGGGTTAGAGCCTTTGCAAGTCAAGTTTTGGTTCCAAAAC
            tgcttac  putative branch site (score: 2)
                                 ttttctactttacttt  putative PPT
                       tattatattgttttct  TA-rich tract