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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaataaagccttgtagaactgttggaatttgaattggttatggaatctgatgcatcatagcaatttacagATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTATAAACAGGCACATGCATTCTCTATTTATCTTGTTCAACCACTACTAGCCA

Basic information

species Vitis vinifera
transcript Vv08s0007g05920.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G16320.1 (Glycine max), 3'ss of exon 5
gtaagaataaagccttgtagaa-ctgttggaatttgaattggttatggaatctgatgcatcatagcaatttacagATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTATAAACAGGCACATGCATTCTCTATTTATCTTGTTCAACCACTACTAGCCA
||||| || ||  |||||| ||  |    ||||     ||||| ||||||  ||||  || ||    || | |||||  ||||||| |||  |||||||||||||||||| ||||| || || ||||| || ||||||||||| ||||||||  | | ||| ||  | ||||| |
gtaagtatcaaagcttgtaaaagttaacagaatccactttggtcatggaagttgata-ataatgtggatgtgcagATCCTGATACACAATATTATGCAAATTGGAGCATCAACAGATCCTGAATATAAGCAAGCACATGCATTTTCTATTTACTTAGCTCAGCCCTTGCTAGCTA

upper sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G34640.1 (Glycine max), 3'ss of exon 5
gtaagaataaagccttgtagaact-gttggaatttgaattggttatggaatctgatgcatcatagcaatttacagATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTATAAACAGGCACATGCATTCTCTATTTATCTTGTTCAACCACTACTAGCCA
||||| || ||  |||||| || |     || |     ||||| | ||||  ||||  ||  |    || | |||||  ||||||| |||  |||||||||||||||||| ||||| || || ||||| |  ||||||||||| ||||||||  | | ||| ||  | ||||| |
gtaagtatcaaagcttgtaaaatttaactgagtccactttggtcaaggaaattgata-atactgtggatgtgcagATCCTGATACACAATATTATGCAAATTGGAGCATCAACAGATCCTGAATATAAGCTAGCACATGCATTTTCTATTTACTTAGCTCAGCCCTTGCTAGCTA
















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|156736397|gb|EV240511.1|EV240511
EST:     CTGGTTTAAATGGCCTTGAAGTTGGGCAGACTGTTGTTATTGCATCTGCT                         ATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTAT
genomic: CTGGTTTAAATGGCCTTGAAGTTGGGCAGACTGTTGTTATTGCATCTGCTgtaagaataa ... caatttacagATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTAT
EST: gi|110377471|gb|EC942537.1|EC942537
EST:     GAAGTTGGGCAGACTGTTGTTATTGCATCTGCT                         ATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTAT
genomic: GAAGTTGGGCAGACTGTTGTTATTGCATCTGCTgtaagaataa ... caatttacagATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaactgttggaatttgaattggttatggaatctgatgcatcatagcaatttacagATTTTGATACATAATGCTATGCAAATTGGAGCATCCACAGACCCAGAGTATAAACAGGCACATGCATTCTCTATTTATCTTGTTCAACCACTACTAGCCA
                             atctgat  putative branch site (score: 4)
          aatttgaatt  TA-rich tract