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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtggcaccttgatttcttctcgctctctctctctctctctctttatccaaggttgttgatttgaattttgaaatgaaactattttggatcttgaactatttgcttacagTGATTATTGGGGAGATTGCAAACTTTGTTGCTTATATCTATGCTCCGGCAGTTCTGGTTACTCCCCTTGGTGCACTTAGTATTATTGTCAG

Basic information

species Glycine max
transcript GLYMA12G03390.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G03390.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os06g50180.1 (Oryza sativa), 3'ss of exon 2
gtaagtgtggcaccttgatttcttctcgctctctctctctctctctctttatccaaggttgttgatttgaattttgaaatgaaactattttggatcttgaactatttgcttacagTGATTATTGGGGAGATTGCAAACTTTGTTGCTTATATCTATGCTCCGGCAGTTCTGGTTACTCCCCTTGGTGCACTTAGTATTATTGTCAG
                           |    ||| ||||      | ||  |  || | | | | || || ||   |||| | ||   |   ||||     |  ||||  | |||| |  |||||||||| |||||||| |||||||||| || ||| || || || || || ||||||||||| ||||| || || || || ||
---------------------------gtatgctcactctacacagcatttac--agttagcttaattaaacttgacaatgcagctgaatgtcatctctg-ttgattgcaca-agTGTTGCTTGGGGAGATAGCAAACTTCGTTGCTTATACCTTTGCACCAGCCGTACTTGTGACTCCCCTTGGGGCACTAAGCATAATCGTAAG

upper sequence: GLYMA12G03390.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g01940.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtgtggcaccttgatttcttctcgctctctctc-tctctctctctttatccaaggttgt-tgatttgaattttga--aatgaaact--attttggatcttgaactatttgctta--cagTGATTATTGGGGAGATTGCAAACTTTGTTGCTTATATCTATGCTCCGGCAGTTCTGGTTACTCCCCTTGGTGCACTTAGTATTATTGTCAG
                        | |   ||||||  | |  || ||   |   ||  || | |||  |||   | |   |||| |  |  || ||||||  |||| | | |  | |   ||||||| |||| ||| |||||||||||||||| ||  | |||||||| ||||||||||| || |||||||||||  | ||||| ||| | ||
-----------------------acacatactctcttatttgcctatcaagaaaaaaaattctctgaaatgatagtcggtcaatgtatattaatcttggattgtgaaatttcttgtcaaatagTGATTGTTGGAGAGGTTGCAAACTTTGTTGCCTACGTTTATGCTCCAGCAGTTCTGGTGACCCCCCTTGGTGCGTTGAGTATAATTATTAG
















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|5606385|gb|AI900539.1|AI900539
EST:     TGGCTATACTTATCTACTAGAGCCGCTTTGGTGGGCTGGCATGGTGACAA                         TGATTATTGTGGAGATTGCAAACTTTGTTGCTTATATCTATGCTCCGGCAG
genomic: TGGCTATACTTATCTACTAGAGCCGCTTTGGTGGGCTGGCATGGTGACAAgtaagtgtgg ... ttgcttacagTGATTATTGGGGAGATTGCAAACTTTGTTGCTTATATCTATGCTCCGGCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatttgaattttgaaatgaaactattttggatcttgaactatttgcttacagTGATTATTGGGGAGATTGCAAACTTTGTTGCTTATATCTATGCTCCGGCAGTTCTGGTTACTCCCCTTGGTGCACTTAGTATTATTGTCAG
 tgttgat  putative branch site (score: 4)
                                            tttgctt  putative PPT
         aattttgaaatgaaac  TA-rich tract