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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttacagcctatgctctaatgcatgcattttttaatggatttaatttgagtgacattattcagcctgtggattatagtgaaccaaaaataatatttcttattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT

Basic information

species Glycine max
transcript GLYMA08G10870.2
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G10870.2 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 3'ss of exon 19
gtttacagcctatgctctaatgcatgcattttttaatgg--atttaatttgagtgacattattcagcctgtggattatagtgaaccaaaaataatatttcttattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT
       || | |    ||||| ||  |  |    ||    || ||     ||    ||| ||  | || | | |||   ||| |  ||     | ||    ||    ||||||  | || ||||||| |||||| |||||||| || ||||| ||||||||| |  |||||||||||||||| ||||  |||| ||| | ||| ||||| 
-------gcttgt----taatgaattaaaatcaacataacaatgtatacatagcattattgtttggtcttttggttactctgatctgaattatctgttgtccatggtccagTTCAATATATATGAAGCGCAACACTGAGCATGATCCCCCATATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGATTCTTTCAGGACTACACCAC

upper sequence: GLYMA08G10870.2 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM2G071675_T01 (Zea mays), 3'ss of exon 2
gtttacagcctatgctctaatgcatgcattttttaatggatttaatttgagtgacattattcagcctgtggattatagtgaaccaaaaataatatttct-tattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT
        || ||||  || | | || | ||    |||| ||  ||   ||  | ||||||  | |     |  |  | |  |  ||     ||||| |  ||    ||||||  | || |||||||  || |||||||||||||| || || ||||||||| |  |||||||||||||||| ||||   ||| ||| ||||| || || 
------tcccaatgccttattac-tgtagttcaagatggtttatat---agctatattatttggtcatccaacaactgggttctgaagtatctatttttacatggtccagTTCAATATATATGAAGCGTAATACAGAGCATGACCCCCCTTATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGGTTCTTTCGGCACTACATCAC

upper sequence: GLYMA08G10870.2 (Glycine max), 3'ss of exon 21
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
gtttacagcctatgctctaatgcatgcattttttaatggatttaatttgagtgacattatt--cagcctgtggattatagtgaaccaaaaataatatttc-ttattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT
                        || ||| ||  ||  |  ||||||  ||  ||    |  || | | ||  ||  | |     | | ||   | ||    ||  ||||| || || |||||||| |  ||||||||||||||||| || ||||||||||||||  ||||||| |||||||||||||| |||| ||| ||||||||||||
-----------------------gtg-attattgcatataactaatttctgttgcacagctatcatcttttgctttgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT

upper sequence: GLYMA08G10870.2 (Glycine max), 3'ss of exon 21
lower sequence: EFJ24054 (Selaginella moellendorffii), 3'ss of exon 20
gtttacagcctatgctctaatgcatgcattttttaatggatttaatttgagtgacattattcagcctgtggattatagtgaaccaaaaataatatttcttattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT
                                                  ||  |  | |||  | | |   ||  |      ||   |   | ||||||  |   ||| ||  | || |  |  |  ||||| ||||||||| |||| ||||||||||| ||||| ||||| |||||||| ||     | | |||  | || ||| | 
--------------------------------------------------gtagcgat-ttctacgtttttgttggaacatttcatcgac--tctttcttcgtttccagCTCTATTTATAACAGACGTAACACCGAGCATGACGCTCCTTACTGGAGAGGCCCTGTATGGATCAACATGAACTATCTCGTCCTTTCATCCCTTCACTAC

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|6072964|gb|AW102351.1|AW102351
EST:     CGCAGCCTCTTATGGACCAACTATGGATTACGTTCACTTGGCAAAACAAG                         TTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGG
genomic: CGCAGCCTCTTATGGACCAACTATGGATTACGTTCACTTGGCAAAACAAGgtttacagcc ... tattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattattcagcctgtggattatagtgaaccaaaaataatatttcttattacacagTTCCTTGTACATGAAGCACAACACAGAGCATGACCCTCCATACTGGAGAGGTCCTGTTTGGATAAACATGAATTACAGAATTCCTTCCGCACTCCACCAT
                                        tttcttatt  CT-rich tract
                          aaccaaaaataatatt  TA-rich tract