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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagacgatcaagctttccttgattgttttattctacttattatataactcaataataatgatattttatgctgtttttttatagtatacttcttcaacttaacataatacttgattgcaagacaattatttgaagccttctatttgattgcatctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG

Basic information

species Glycine max
transcript GLYMA10G06580.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G06580.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 3'ss of exon 6
gtcagacgatcaagctttccttgattgttttattctacttattatataactcaataataatgatattttatgctgtttttttatagtatacttcttcaacttaacat-aatacttgattgcaagacaattatttgaagcctt-ctatttgattgcatctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                                                |||| | |||| |||  ||   | | | |  ||||  |  | | |  || |  ||     ||||| || ||| |  |  ||||||   ||  | ||     || || || ||||| ||||||||||| ||||| |||||||| ||||||||| ||| || |||||| || |||||| |||
---------------------------------------------------------------gatttcaagctgatttcgtactatgtccgttctcaatatttcgtcagcacctttttctttaacaat-atctgatgtttagctatttatctgtctgtac---cagATCACTGGTTGCAAACTTATCAGCAGCAAACTGCTACAAATCTGAGCATCTGAAGAAACCGGAGAACTGGGCACTAG

upper sequence: GLYMA10G06580.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0019g04470.t01 (Vitis vinifera), 3'ss of exon 6
gtcagacgatcaagctttccttgattgttttattctacttattatataactcaataataatgatattttatgctgtttttttatagtatacttcttcaacttaacataatacttgattgcaagacaattatttgaagccttctatttgattgcatctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                     |||    | |    || |   || |     | ||  | ||||  | |     | || ||||    ||||||     ||   ||||       || ||    |||||||       ||| |  ||| ||||| ||  ||||||||||||| ||||||||||||||||||||||| ||||||| ||| || ||||| |||||| |||
------------------------------------gcttcccgtgt----cattgtcaaggg----tcatcatattttcctgtg----attttttcag---aacata-----tgccagcaacctgtccatgtgctctcttctat-------cattt--atgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCTGAACATTTGAAGAGGCCTGAAAACTGGGCACTAG

upper sequence: GLYMA10G06580.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0019g04480.t01 (Vitis vinifera), 3'ss of exon 6
gtcagacgatcaagctttccttgattgttttattctacttattatataactcaataataatgatattttatgctgtttttttatagtatacttcttcaacttaacataatacttgattgcaagacaattatttgaagccttctatttgattgcatctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                         ||  |||     |  |  | || |     |  || || |||       |||| || | ||     | | ||||   ||||           | ||| | | |||||     ||| ||  || ||||| ||  ||||||||||||| |||||||||||||||||||| || || |||| ||| || ||||| ||||||||||
-----------------------------------------tttaataggaagaagagcaagaaaccgagtattgattgtttg----gcacttgtttatct----gtcaaactttgctgca-----------tcaagtcctatattta---tcattta--tgcagGTCACTCATTGCCAACTTATCGGCTGCAAATTGCTACAAGTCCGAACACTTGAAGAGGCCTGAAAACTGGGCATTAG

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|8284137|gb|BE021696.1|BE021696
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTTGT-GCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTT-GTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATT
EST: gi|6454402|gb|AW185085.1|AW185085
EST:     GACACTACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGC-AACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|213618065|gb|DB963698.1|DB963698
EST:     GACACTACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|12689938|gb|BG156274.1|BG156274
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|17022031|gb|BM093065.1|BM093065
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|12690012|gb|BG156348.1|BG156348
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|151394548|gb|EV264419.1|EV264419
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|5606299|gb|AI900405.1|AI900405
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|120531830|gb|EH259963.1|EH259963
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|19936079|gb|BQ080713.1|BQ080713
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|16348521|gb|BI974116.1|BI974116
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTT
EST: gi|16105072|gb|BI892812.1|BI892812
EST:     GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAG                         GTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTC
genomic: GACAATACACCTACAGGAACTTGTGCTGTTTGTGTGGTTGGTGGTGAAAGgtcagacgat ... ctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgattgcaagacaattatttgaagccttctatttgattgcatctaaatgtagGTCCCTTGTTGCCAACTTATCAGCTGCAAATTGCTACAAGTCTGAGCATTTGACGAGACCGGAAAATTGGGCATTAG
                                           atctaaa  putative branch site (score: 3)
               aattatttgaa  TA-rich tract