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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatattcaattggactctgaaagataaggagtcattattttgtagttggctacttagattttggttccaaagcctcaattaatttcacgattatgattttacttgaaaaaaaacttttttcaaatgtaaaaaaatatatatattaaaagatttttcttttcttttgaatgagtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTGTATCTGGGATAGTTTTAGGAATTATAATGACCTGTGCACTTTTGTTTCT

Basic information

species Glycine max
transcript GLYMA02G10590.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G10590.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os09g06499.1 (Oryza sativa), 3'ss of exon 10
gtacatattcaattggactctgaaagataaggagtcattattttgtagttggctacttagattttggttccaaagcctcaattaatttcacgattatgattttacttgaaaaaaaacttttttcaaatgtaaaaaaatatatatattaaaagatttttcttttcttttgaatgagtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTGTATCTGGGATAGTTTTAGGAATTATAATGACCTGTGCACTTTTGTTTCT
                                               ||    ||||   |   |  |    |    ||| ||   | |    ||||   | || |  | ||  ||  || ||  |||  |  | |   ||    | ||||   |  |    | ||||| |  | |    |||| |||||||| ||||||||||| ||||||||||| || |||||| ||||| ||||||| ||  |  | || || |||||     |||| || |||||| |
-----------------------------------------------gtaaaatact--aaccatattaatgagagatcatttctgtgcttatttatctgtatattacataattaaaattctt--aattcactagagc-taagcttcaaaaagctgat----tattttgtactattctttcagGTTCCTTTTCTAGGTCAGCTGTGAATCATGAAAGTGGAGCAAAAACTGGTCTATCTGGAATCATAATGGGCATAATAATTGGTGGTGCTCTCTTGTTTAT

upper sequence: GLYMA02G10590.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G068212_T01 (Zea mays), 3'ss of exon 9
gtacatattcaattggactctgaaagataaggagtcattattttgtagttggctacttagattttggttccaaagcctcaattaatttcacgattatgattttacttgaaaaaaaacttttttcaaatgtaaaaaaatatatatattaaaagatttttcttttcttttgaatgagtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTGTATCTGGGATAGTTTTAGGAATTATAATGACCTGTGCACTTTTGTTTCT
                                                                    |  ||    | |  | || |   ||| |  |    | |        |   |||| || || |     | |   || || |||| |||       |    | | ||  | | ||||| |||||||| |||||||| || ||||||||||| || |||||| ||||  ||||||| ||  |  | || || || ||     |||| || || ||| |
-------------------------------------------------------------------gtaaaatatttaacattatatagtgataaataacccagtcctttgttagtcttttgcatat-tgtcttagttgctagatcaaaatattacaagcctaaact-actggttcatgcagGCTCCTTTTCTAGGTCAGCAGTGAATCATGAAAGTGGGGCAAAAACTGGGTTATCTGGAATCATAATGGGCATAATCATTGGTGGTGCTCTCTTATTTAT

upper sequence: GLYMA02G10590.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 3'ss of exon 9
gtacatattcaattggactctgaaagataaggagtcattattttgtagttggctacttagattttggttccaaagcctcaattaatttcacgatt-atgattttacttgaaaaaaaacttttttcaaatgtaaaaaaatatatatattaaaagatttttcttttcttttgaatgagtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTGTATCTGGGATAGTTTTAGGAATTATAATGACCTGTGCACTTTTGTTTCT
||  | ||| | |||   | ||          | |     ||    |||    ||| |  | |   | |  | |      |||||||| |   || | ||| |    |   |   || |||||  ||     | |   | |  | |   |     |||| |||  ||||||||   | | ||||| |||||||| ||||| |||||||||||||||||||| |||||| ||||  ||||||| || |||  |||||| |||||   |||||| |||||||||||
gtg-agatttatttgaggtttgctgagctgcaaattgaggttcatcagtca--tacctgtagtggagattaacacaaagcattaatttaatccttcaggatctagtgtttcatggaaatttttataaccaagatatgcttttgaaaggtagcttcttttatttatttttgaata--ttatgcagGCTCCTTTTCTAGGTCGGCTGTAAATCATGAAAGCGGAGCAAAAACTGGATTATCTGGAATTGTTACAGGAATCATAATAGGCTGTGCTCTTTTGTTTCT

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|18730274|gb|BM525785.1|BM525785
EST:     TGGTGTTTCCAATGTTCTTGGTTCANNNNNNNCAGCATACCCCACAACAG                         GATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTG
genomic: TGGTGTTTCCAATGTTCTTGGTTCATTTTTTTCAGCATACCCCACAACAGgtacatattc ... agtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTG
EST: gi|254333563|gb|GR848481.1|GR848481
EST:     TGGTGTTTCCAATGTTCTTGGTTCANNNNNNNCAGCATACCCCACAACAG                         GATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTG
genomic: TGGTGTTTCCAATGTTCTTGGTTCATTTTTTTCAGCATACCCCACAACAGgtacatattc ... agtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaaaaaatatatatattaaaagatttttcttttcttttgaatgagtaacgcagGATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGCGGTGCAAAATCTGGTGTATCTGGGATAGTTTTAGGAATTATAATGACCTGTGCACTTTTGTTTCT
                                            gagtaac  putative branch site (score: 2)
     aaaatatatatattaa  TA-rich tract