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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaagaatgttttattacttatcacatatgttctcaacagtatcttttgtttgttaacgataaaattaccccgccctaccctccccaaaagGTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGTCTTGTTGCTTGGGTTAATGATGCAGGAGTGAAGGTTTATGATACTGCCA

Basic information

species Glycine max
transcript GLYMA12G08840.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0024g01120.t01 (Vitis vinifera), 3'ss of exon 1
gtttgtaagaatgttttattacttatcacatatgttctcaacagtatcttttgtttgttaacgataaaattaccccgccctaccctccccaaaagGTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGTCTTGTTGCTTGGGTTAATGATGCAGGAGTGAAGGTTTATGATACTGCCA-------------------
                                            | | |||  ||| ||||  ||| ||  |    ||            |  ||||| | ||||||||||||||| | |||||||  ||||| |||||| ||||||   ||||||||| |||||||||||| || || |||||||||||||| |                   
----------------------------------------gtcatttatttatttttttaataatacaaaaagatggctaggttaaaaggatcaggttctacactctggtgaagGTCCTATACATGTAGTGAAGTGGAGAACAAGTCCCATTGCTTGGGCTAATGATGCAGGTGTAAAAGTTTATGATACTGCTAATGATCAGCGTATAACATT

upper sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 2
gtttgtaagaatgttttattac-ttatcacatatgttctcaacagtatcttttgtttgttaacgataaaattaccccgccctaccctccccaaaagGTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGTCTTGTTGCTTGGGTTAATGATGCAGGAGTGAAGGTTTATGATACTGCCA
||||||   |    ||  | || || |  | | ||     | | |  |  |||  | |||   ||    ||| |       || |||      | |||| | ||||||||||||||| | |||||||| ||||| |||||| |||||||  ||||||||| |||||||||||| || || |||||||||||||| |
gtttgtgctagctcttgctaacgttgttgcttgtgccaaaacctggttactttcctggttcctga----attgcagaagtttatcctttttcta-gGTTCTACACTCTGGTGAAGGTCCTATACATGCAGTGAAGTGGAGAACAAGTCTCATTGCTTGGGCTAATGATGCAGGTGTAAAAGTTTATGATACTGCTA
















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|16996827|gb|BM086199.1|BM086199
EST:     CTGGTCATTTATATTTAAATTCAAAGAAATGGTTAGGATACCGTGATCAG                         GTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGT
genomic: CTGGTCATTTATATTTAAATTCAAAGAAATGGTTAGGATACCGTGATCAGgtttgtaaga ... tccccaaaagGTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagtatcttttgtttgttaacgataaaattaccccgccctaccctccccaaaagGTTTTGCACTCTGGTGAAGGTTCAATACATGCTGTGAAATGGAGAGCAAGTCTTGTTGCTTGGGTTAATGATGCAGGAGTGAAGGTTTATGATACTGCCA
               tgttaac  putative branch site (score: 2)
                             ttaccccgccctaccc  putative PPT
                 ttaacgataaaatta  TA-rich tract