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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctagttgaaaagcactattggcttattgcattattttttcttttcttttttgaaattttaacactgatgcttgttggctaactgctccttccttttctttttgaataaaatggtcctgatctttgcttgtatcacctagtgcatgtgaactgactctccttttgtgttccagGTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTTAGTCGTAAAAATATATTTTATCGGGACAATTTCACTTGTCA

Basic information

species Vitis vinifera
transcript Vv08s0007g07540.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G28660.1 (Glycine max), 3'ss of exon 3
gtatctagttgaaaagcactattggcttattgcattattttttcttttcttttttgaaattttaacactgatgcttgttggctaactgctccttccttttctttttgaataaaatggtcctgatctttgcttgtatcacctagtgcatg-tgaactgactctccttttg-----tgttccagGTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTTAGTCGTAAAAATATATTTTATCGGGACAATTTCACTTGTCA
                                                                      |||  | ||    ||  | |  || ||             |||||  || || |  |||  ||   ||   |      | | |||| | ||| ||||||     || | |||||||| ||| |||| |||||||| || ||||||| ||| || ||||| |||||||| ||||||||| | | ||||||||||| ||| |||||
----------------------------------------------------------------------atgagtattaagcaaacggttattgctg------------aaaattttcttgttaattgtctgctccaataaagatgagctcaacttaatcttcttttggttattggtacagGTTCCTCATTTACTTCAGGTTGTTAAAAGAAGAATAATCAAGAACAATCTTAGTCGGAAAAATATACTATTTCGGGACAATTACACCTGTCA
















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|161715506|gb|FC067098.1|FC067098
EST:     AGACTGTGAACTCACCCAGCGGATCCTTCTACATACCAGCTGTCTTGAGG                         GTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTT
genomic: AGACTGTGAACTCACCCAGCGGATCCTTCTACATACCAGCTGTCTTGAGGgtatctagtt ... tgtgttccagGTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTT
EST: gi|122689451|gb|EC939681.1|EC939681
EST:     AGACTGTGAACTCACCCAGCGGATCCTTCTACATACCAGCTGTCTTGAGG                         GTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTT
genomic: AGACTGTGAACTCACCCAGCGGATCCTTCTACATACCAGCTGTCTTGAGGgtatctagtt ... tgtgttccagGTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTT
EST: gi|294966866|gb|GW839741.1|GW839741
EST:     AGACTGTGAACTCACCCAGCGGATCCTTCTACATACCAGCTGTCTTGAGG                         GTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAAGCTT
genomic: AGACTGTGAACTCACCCAGCGGATCCTTCTACATACCAGCTGTCTTGAGGgtatctagtt ... tgtgttccagGTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctttgcttgtatcacctagtgcatgtgaactgactctccttttgtgttccagGTTCCACATCTACTGCAGGTTGTCAAGAGAAGAAGAATAAAAAACAACCTTAGTCGTAAAAATATATTTTATCGGGACAATTTCACTTGTCA
                              aactgac  putative branch site (score: 2)
                                    ctctccttttgtgttc  CT-rich tract