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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtggattattcttggccttcagtttatttctcatgtttcattcttaagtctcttgcttacaaattaaaccatggctttttccttggcctgctttctttgtccagggatgcagtgtatcttggttgtgtctgcttactttaacttctttcttgttctttatcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG

Basic information

species Glycine max
transcript GLYMA06G08480.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 5
gtctgtggattattcttggccttcagtttatttctcatgtttcattcttaagtctcttgcttacaaattaaaccatggctttttccttggc--ctgctttctttgtccagggatgcagtgtatcttggttgtgtctgcttactttaacttctttcttgttctttatcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG
                                     ||| | ||| ||   |        | || || ||  | |  |   |||  | ||  ||| ||  ||  ||    | || |  | | | || |||         ||  |   ||| ||  | |  | ||  |||    |||||||||||| ||||||| || |||||||| || ||||||||||| ||||| ||||| || || || ||| ||| | | ||  | |  |||
------------------------------------gtgtgtgattgtttgattc------tgcatatcaattcttaacaaattcggtagctgctgattcattcttctgttgctgaaaaggagcatgcttg---------accatcttttcctttctttcttctaaaata----gATATGCATGAATTACGCCTTATTCACACTGATCTGAAGCCAGAAAACATACTCCTTGTGTCTTCGGAGTATATAAGGGTTCCAGGTTCCAAG

upper sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G094039_T06 (Zea mays), 3'ss of exon 5
gtctgtggattattcttggccttcagtttatttctcatgtttcattcttaagtctcttgcttacaaattaaaccatggctttttccttggcctgctttctttgtccagggatgcagtgtatcttggttgtgtctgcttactttaacttctttcttgttctttatcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG
                                                   || | ||  |||    || |  |    | |      |   ||  |||  | |    ||  |    | | | ||| ||      |      |||||     |||| |  ||| | |    |||||||||||||  | || || ||||||||||| || ||||||||||| ||||| ||||| || ||||| ||| ||||  | || ||    |||
---------------------------------------------------gtgtgttagttattgcttgattctgcacatcaattattagctaatttggtagcattggcttcacttttctattgcttcaaaggggcagtgttaacca---tcttttcttttgtaa----cagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG

upper sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G094039_T01 (Zea mays), 3'ss of exon 4
gtctgtggattattcttggccttcagtttatttctcatgtttcattcttaagtctcttgcttacaaattaaaccatggctttttccttggcct--gctttctttgtccagggatgcagtgtatcttggttgtgtctgcttactttaacttctttcttgttctttatcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG
                                                     ||      | || || ||    | |||  ||   | || |  ||||   || || |  | | ||  |      ||  ||||          ||||     |||| |  ||| | |    |||||||||||||  | || || ||||||||||| || ||||||||||| ||||| ||||| || ||||| ||| ||||  | || ||    |||
-----------------------------------------------------cttgattctgcacatcaattattagctaatttggtagcattggcttcacttttctattgcttcaaagg-----ggcagtgt----------taacca---tcttttcttttgtaa----cagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG

upper sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 6
gtctgtggattattcttggccttcagtttatttctcatgtttcattcttaagtctcttgcttacaaattaaaccatggctttttccttggcctgctttctttgtccagggatgcag---tgtatcttggttgtgtc-tgcttactttaacttctttcttgtt-ctttatcatattca---gATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG
|| |||| ||| | ||||||| |   ||||| ||||||  |  ||| |  | | |||  | ||   | | | |||   || |||  | |||||| ||| ||||||||||  || |    |||||  || ||||||| |  ||  |||||| |  || |  || |||||  |||| ||   ||| |||||||  || || ||||||| |||||||| ||||||||||||||||||||||| || ||||| | | ||||||| |||||||  |||
gtgtgtgcattgtccttggcccttgctttatctctcattctgtatttt--attttctaacctaaccaattacccagatctgttttttgggcctgttttgtttgtccaggactgtacctctgtattatgtttgtgtcctttttgttttaacatgattttccttgctttacaatatccaacagATGTGCATGATTTATGCTTAATCCATACTGACCTGAAGCCAGAAAATATACTTCTTGTATCATCTGAGTGTATAAAGCTTCCTAGCTCCAAG

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|208186047|gb|GD986760.1|GD986760
EST:     TTTTGGAATCTGTAGCAT                         ATATGCATGAACTACGCCTAATCCACACTG-CCTAAAGCCNGAAAATATAC
genomic: TTTTGGAATCTGTAGCATgtctgtggat ... tcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATAC
EST: gi|151397612|gb|EV267485.1|EV267485
EST:     TGTGGATCTTGTTCGGGAATTTGGACGTCAGCTTTTGGAATCTGTAGCAT                         ATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATAC
genomic: TGTGGATCTTGTTCGGGAATTTGGACGTCAGCTTTTGGAATCTGTAGCATgtctgtggat ... tcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATAC
EST: gi|193315737|gb|FK279395.1|FK279395
EST:     TGTGGATCTTGTTCGGGAATTTGGACGTCAGCTTTTGGAATCTGTAGCAT                         ATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATAC
genomic: TGTGGATCTTGTTCGGGAATTTGGACGTCAGCTTTTGGAATCTGTAGCATgtctgtggat ... tcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcttggttgtgtctgcttactttaacttctttcttgttctttatcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG
                           cttctttcttgttctt  CT-rich tract
                                      ttctttatcatatt  TA-rich tract