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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattacaacctatgcttaaatgcatttttaatggtttgaatttgtgtggtcttattcagcatatgttgcttatggtgaaccaaaaaataattatttttcacagTTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGGTCAAATTTGGATAAACATGAATTACAGAATTCTTTCAGCGCTCCACCAT

Basic information

species Glycine max
transcript GLYMA05G27890.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 3'ss of exon 19
gtatattacaacctatgcttaaatgcatttttaatggtttgaatttgtgtggtcttattcagcatatgttgcttatggtgaaccaaaaaata-attattttt--cacagTTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGGTCAAATTTGGATAAACATGAATTACAGAATTCTTTCAGCGCTCCACCAT
|  | |||      |||  | ||        |||   | |  |  |  |   | || ||  |  | | ||| |||   ||| |  ||  ||   || |   |    ||||||  | || |||||   |||| |||||| |||    |||||||||||||||   ||||||||||||||||| ||||  ||||||||||  || ||||| 
gcttgtta------atgaattaaaatcaacataacaatgtatacata-gcattattgtttgg--tcttttggttactctgatctgaattatctgttgtccatggtccagTTCAATATATATGAAGCGCAACACTGAGCATGATCCCCCATATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGATTCTTTCAGGACTACACCAC

upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 19
gtatattacaacctatgcttaaatgcatttttaatggtttgaatttgtgtggtcttattcagcatatgttgcttatggtgaaccaaaaaataattatttt------tcacagTTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGGTCAAATTTGGATAAACATGAATTACAGAATTCTTTCAGCGCTCCACCAT
                       ||  | ||  ||      ||||| ||| | |  |   | ||| | |||||| ||     | ||| |    | | |||      |||||| || || |||||||||   ||| | |||| |||    || || |||||||||| ||||||||| |||||||||||||| |||||||| || |||||||||
----------------------gtgattattgcatataactaatttctgttg-cacagctatcatcttttgctt-tgcaattctaaatacatgtcactttaccatatcacagCTCATTATACATGAAACGTAACACAGAGCATGACCCACCTTACTGGAGAGGTCCAATTTGGATGAACATGAATTACAGGATTCTTTCTGCACTCCACCAT
















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|192323951|gb|FK018657.1|FK018657
EST:     CACAGTCTCTTTTGGACTGGCTATGGACTGCGATCGCTTGCCACGACAAG                         TTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGG
genomic: CACAGTCTCTTTTGGACTGGCTATGGACTGCGATCGCTTGCCACGACAAGgtatattaca ... tttttcacagTTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttattcagcatatgttgcttatggtgaaccaaaaaataattatttttcacagTTCCTTGTACATGAAATTCAACTCTGAGCTTGAGGGTCCATATTGGAGAGGTCAAATTTGGATAAACATGAATTACAGAATTCTTTCAGCGCTCCACCAT
                                          ttatttttc  CT-rich tract
                           tgaaccaaaaaataat  TA-rich tract