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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttttaagaacatatatagctgaatatcttttgttcaatttcatagatcgagtatccaacattataagcttctttaatttgtttatatgttgttactgttattatatatggttttgttggaatcatgtttatgttatgtccttaacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATGCTTTCTGGCATACTTTTCCAAATCTTCTATGGTTTACTCGGAAGTTGGA

Basic information

species Glycine max
transcript GLYMA11G11310.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 3'ss of exon 1
gttggttttaagaacatatatagctgaatatcttttgttcaatttcatagatcgagtatccaacattataagcttctttaatttgtttatatgttgttactgttatt-atatatggt--tttgttggaatcatgtttatgttatgtccttaacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATGCTTTCTGGCATACTTTTCCAAATCTTCTATGGTTTACTCGGAAGTTGGA
                    |  |   | || || || || |    || | | |  |        ||   |  | | |  | |      || |||  | | || ||  || | | |   || | |  |||| ||  | || | ||| |||      |||||||||||| ||||| || ||| |||| ||||| |||||||| ||||| |||||    |||||||| |||||  ||||||| ||  |  | || || ||||
-------------------gtgacc--acattttctgatcgacgctat-gcttgcttccattttcttgcgaaatgcatgcaatctaaggtaggtttgtgccgtgatcgatgtgtagccgttcggttaaatc-tgcat-tgctgtgtgcttcg---atcagGTGGCCCAGGTGCTCCTGACGCTGCCCTACTCGTTCTCCCAGCTGGGGATGCTCAGCGGCATACTGTTCCAGCTCTTCTACGGGCTGTTGGGCAGCTGGA

upper sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 1
gttggttttaagaacatatatagctgaatatcttttgttcaatttcatagatcgagtatccaacattataagcttctttaatttgtttatatgttgttactgttattatatatggttttgttggaatcatgtttatgttatgtccttaacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATGCTTTCTGGCATACTTTTCCAAATCTTCTATGGTTTACTCGGAAGTTGGA
                                                          ||  ||  |  ||  || | || ||||       ||||  |        | | | ||   | | |  | |   || || ||  ||        | ||||||||| || || ||||| || |||||||||||||| ||||| ||||| ||||| ||||| || || |||||  | |||||||| ||  | ||||| ||||
---------------------------------------------------------gtctcaccatgaaaaattttgtattttga------gttgagaaaaaatgaaaaaaaggaactttagtcacccacttcat-ttgggtttggtttgtttcagGTGGCTCAGGTTCTGCTGACTTTGCCATACTCATTTTCCCAGCTGGGGATGCTGTCTGGGATTCTATTCCAGCTGTTCTATGGCTTGATGGGAAGCTGGA

upper sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ21839 (Selaginella moellendorffii), 3'ss of exon 1
gttggttttaagaacatatatagctgaatatcttttgttcaatttcatagatcgagtatccaacattataagcttctttaatttgtttatatgttgttactgttattatatatggttttgttggaatcatgtttatgttatgtccttaacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATGCTTTCTGGCATACTTTTCCAAATCTTCTATGGTTTACTCGGAAGTTGGA
                                                 |   |   |  ||   || |  |  | |||  ||| ||  | |    |    ||| || |   | ||  | || |  ||| | || | || |||  | |   |  |||||||| ||||||||||| ||| |||||||||| ||||| || |||||| |    || |||||  | ||||| |||||||||||  | |||||    ||||
-------------------------------------------------gtgaggacaaacagagttttgggacttttttttttcttcctct----tcttcgttgttgtgc-ttgtgatcttcgcctcacggtt-tcttctgtggtga--tttccagGTGGCTCAAGTGCTGCTCACGCTGCCATACTCCTTCTCGCAGCTGGGATTCGCGTCGGGCATTGTCTTCCAGATCTTCTATGGCCTGCTCGGGGCCTGGA

upper sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ34222 (Selaginella moellendorffii), 3'ss of exon 1
gttggttttaagaacatatatagctgaatatcttttgttcaatttcatagatcgagtatccaacattataagcttctttaatttgtttatatgttgttactgttattatatatggttttgttggaatcatgtttatgttatgtccttaacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATGCTTTCTGGCATACTTTTCCAAATCTTCTATGGTTTACTCGGAAGTTGGA
                                                    | |  |  ||   ||   |  || |||   ||  || |   |  |    ||| || |   | ||  | || |  ||| | || | || |||  | |   |  |||||||| ||||||||||| ||| |||||||||| ||||| || |||||| |    || |||||  | |||||  ||||||||||  | |||||    ||||
--------------------------------------------------gacaaacacacagttttgggacttttttt---tttcttcttcctcttcttcgttgttgtgc-ttgtgatcttcgcctcacggtt-tcttctgtggtga--tttccagGTGGCTCAAGTGCTGCTCACGCTGCCATACTCCTTCTCGCAGCTGGGATTCGCGTCGGGCATTGTCTTCCAGGTCTTCTATGGCCTGCTCGGGGCCTGGA

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|17023230|gb|BM094264.1|BM094264
EST:     GGCATGGAGGTTCTGTTTATGATGCTTGGTTTAGCTGTGCTTCCAACCAG                         GTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATG
genomic: GGCATGGAGGTTCTGTTTATGATGCTTGGTTTAGCTGTGCTTCCAACCAGgttggtttta ... aacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATG
EST: gi|209726328|gb|BW659628.1|BW659628
EST:     GGCATGGAGGTTCTGTTTATGATGCTTGGTTTAGCTGTGCTTCCAACCAG                         GTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATG
genomic: GGCATGGAGGTTCTGTTTATGATGCTTGGTTTAGCTGTGCTTCCAACCAGgttggtttta ... aacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattatatatggttttgttggaatcatgtttatgttatgtccttaacatgtcagGTGGCCCAAGTGCTGCTTACGTTGCCATACTCATTCTCCCAACTGGGAATGCTTTCTGGCATACTTTTCCAAATCTTCTATGGTTTACTCGGAAGTTGGA
                                         ccttaac  putative branch site (score: 3)
                             tttatgttat  TA-rich tract