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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatatttcttgttgctgcaatatttgcatcttctccaatatttgatcttctgatcttccatttatgatggtcttagGTGAGAAGGCCCGTGATACTCCATATGAAGTTGATATTACTATTCCAGTAGAGGGTTATGAGCCCATTCAGTTTACTCTCACAAAAATGTGTG

Basic information

species Vitis vinifera
transcript Vv04s0023g02560.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02560.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA02G05950.1 (Glycine max), 3'ss of exon 12
gtatggatatttcttgttgctgcaatatttgcatcttctccaatatttgatcttctgatcttccat-ttatgatggtctt--agGTGAGAAGGCCCGTGATACTCCATATGAAGTTGATATTACTATTCCAGTAGAGGGTTATGAGCCCATTCAGTTTACTCTCACAAAAATGTGTG
|||||| |    ||| ||   | |  ||  |  |  | | |    |||  | |  | |  ||  ||  | | |   | ||  |||||||  ||||||| |||| |||||||||||| |||| || || || || |||||||||||||| ||| | |||   || |||||||  ||||
gtatgg-tcccacttattttaggatcatcagtgttctgtgctgagttttctttgttaaagtttaatgctttaactcttttccagGTGAGGTGGCCCGTAATACCCCATATGAAGTTAATATCACAATCCCTGTTGAGGGTTATGAGCCAATTGAATTTGTGCTTACAAAAACATGTG

upper sequence: Vv04s0023g02560.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA16G24650.1 (Glycine max), 3'ss of exon 5
gtatggatatttcttgttgctgcaat-atttgcatcttctccaatatttgatcttctgatcttccatttatgatggtctt-agGTGAGAAGGCCCGTGATACTCCATATGAAGTTGATATTACTATTCCAGTAGAGGGTTATGAGCCCATTCAGTTTACTCTCACAAAAATGTGTG
|||||| |    ||| |   | |||| ||  |  |  |    | | ||   | ||    | |    |||    |  | |  |||||||  ||||||| |||| |||||||||||| |||| || || ||||| ||||| |||||||| ||| | |||   || ||||| || ||||
gtatgg-tcccacttat-attacaatcatcagtgttctgctgagttttctttgttaaagtttaatgtttcaactcttttccagGTGAGGTGGCCCGTAATACCCCATATGAAGTTAATATCACAATCCCAGTTGAGGGGTATGAGCCAATTGAATTTGTGCTTACAAAGATATGTG
















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|33406646|gb|CF212273.1|CF212273
EST:     ACCTACAACGTTGTCACCCACAATGTTGGTTGTGGATTGGAGTT                         GTGAGAAGGCCCGTGATACTCCATATGAAGTTGATATTACTATTCCAGTAG
genomic: ACCTACAACGTTGTCACCCACAATGTTGGTTGTGGATTGGAGATgtatggatat ... atggtcttagGTGAGAAGGCCCGTGATACTCCATATGAAGTTGATATTACTATTCCAGTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgcatcttctccaatatttgatcttctgatcttccatttatgatggtcttagGTGAGAAGGCCCGTGATACTCCATATGAAGTTGATATTACTATTCCAGTAGAGGGTTATGAGCCCATTCAGTTTACTCTCACAAAAATGTGTG
                          ttctgat  putative branch site (score: 3)
               aatatttgat  TA-rich tract