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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtgcatccattttatatattgaaaatacatttcttcattgcctccttttgtttatctgctgttccatgcaacatgcataaaattgctgataattgcctatatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATTTGTTAGCACTTCCTGCTGTAGATTGTGATAAAGCCTTTGCCATGCAGTT

Basic information

species Glycine max
transcript GLYMA19G41400.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G41400.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g04020.1 (Oryza sativa), 3'ss of exon 8
gtctgtgcatccattttatatattgaaaatacatttcttcattgcctccttttgtttatctgctgttccatgcaacatgcataaaattgctgataattgcctatatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATTTGTTAGCACTTCCTGCTGTAGATTGTGATAAAGCCTTTGCCATGCAGTT
                    |  |||    ||| |  || |  |     |||| |||||| |||         ||||| ||   | || |  |    || ||    ||  ||| || ||||||||||||||||||||  | |||||||| ||||||||||| || ||||||||||| ||||| || | ||||||||| ||||| |||||  |
-------------------gttctgagctgacaatattttaaag-----ttttatttatcagct--------taacattcaatgacttacaaactgatgtctgc--ttgcagGGGTGCGCTTCACAACTTATCATGGCCATTTCATGCTAAGGTCCACCGACTTATTAGCACTTCCAGCTGTTGACTCTGATAAAGCATTTGCAATGCAACT

upper sequence: GLYMA19G41400.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
----------------gtctgtgcatccattttatatattgaaaatacatttcttcattgcctccttttgt-----tta--tctgctgttcca------tgcaacatgc-ataaaattgctgataattg---------cctatatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATTTGTTAGCACTTCCTGCTGTAGATTGTGATAAAGCCTTTGCCATGCAGTT
                  || | || ||||   |  | |||| | ||  |||   | ||   |  | ||||     |||  | | ||  | ||      ||  |  ||| ||     | |||| | |||         ||| || |||||||||| || || ||| |||||||||| ||||||||||| || ||||| ||||||||||| ||||| |||||||| ||||||||||||||||| ||||||||
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
















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|193616094|gb|FK570134.1|FK570134
EST:     TACCAGAGAAACTGCATGGGAAGCTGTAATGCGCATTGGATGTGCAAAAG                         GTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATT
genomic: TACCAGAGAAACTGCATGGGAAGCTGTAATGCGCATTAGATGTGCAAAAGgtctgtgcat ... atatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATT
EST: gi|207815323|gb|GD786122.1|GD786122
EST:     TACCAGAGAAACTGCATGGGAAGCTGTAATGCGCATTAGATGTGCAAAAG                         GTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACTGATT
genomic: TACCAGAGAAACTGCATGGGAAGCTGTAATGCGCATTAGATGTGCAAAAGgtctgtgcat ... atatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgctgttccatgcaacatgcataaaattgctgataattgcctatatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATTTGTTAGCACTTCCTGCTGTAGATTGTGATAAAGCCTTTGCCATGCAGTT
                              tgctgat  putative branch site (score: 3)
                                              tattttt  putative PPT
                                            tatattttta  TA-rich tract