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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcacaataagacctccacaaactgactctcccatccgctttttaagtttttctttcaactttcaactgattttctattgatcaaggcctctactgtgtttttaaatgcatattgaatcctactacagGAGTTGGGAGCTTCTTGCACCGTGGCAAGGATCAAAAATCACAATTCCATCCAAGTTGATATTTGGTGACAAAGATATTGGTTTTAAAGACGGTGGTACA

Basic information

species Vitis vinifera
transcript Vv04s0023g02610.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G05880.1 (Glycine max), 3'ss of exon 3
gtaagcacaataagacctccacaaactgactctcccatccgctttttaagtttttctttcaactttcaactgattttctattgatcaaggcctctactgtgtttttaaatgcatattgaatcctactacagGAGTTGGGAGCTTCTTGCACCGTGGCAAGGATCAAAAATCACAATTCCATCCAAGTTGATATTTGGTGACAAAGATATTGGTTTTAAAGACGGTGGTACA
                          || ||  |  ||  |  ||   |   |          | |    | ||||||||| ||  ||      |  ||  |  |||  |  ||  | |||  |  ||||| |  ||||||||||||||||| |||||||||||||| || ||| ||||| | ||||| |||   || |||||||| || |||||| ||   |  ||||||
------------------------cttgcctagcgaattggacttggtaaaatccagcatgtttatgttttcattttctatggaagaa-----ttcatgcttccttacgttgatgctcaatggt--tacagAAACTGGGAGCTTCTTGCACCATGGCAAGGATCAAAGATAACAGTTCCAACGAAGTTCATAGGAGGAGACAAAGACATCGGTTTTGAAACAGCGGGTACA

upper sequence: Vv04s0023g02610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G24570.2 (Glycine max), 3'ss of exon 2
gtaagcacaataagacctccacaaactgactctcccatccgctttttaagtttttctttcaactttcaactgattttctattgatcaaggcctctactgtgtttttaaatgcatattgaatcctactacagGAGTTGGGAGCTTCTTGCACCGTGGCAAGGATCAAAAATCACAATTCCATCCAAGTTGATATTTGGTGACAAAGATATTGGTTTTAAAGACGGTGGTACA
                    | |||  || | | | |   |||    || |     |   ||  | | ||   ||||||||  |  ||    | |  |  |||     ||||  | || ||      |||| |  ||||||||||||||||| ||||||||||||||  | ||| ||||| | |||||  ||   || |||||||| || |||||| ||   |  ||||||
--------------------aaaaaaagattatac-acttgctagcaaattggacttcgtaaaatccgacatgttttctatgaaagaattattttcttacgtt----gatgctcaatggat------acagAAACTGGGAGCTTCTTGCACCATGGCAAGGATCAAAGCTAACAGTTCCAACGAAGTTCGTAGCAGGAGACAAAGACATCGGTTTTGAAACAGCGGGTACA
















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|30134538|gb|CB919876.1|CB919876
EST:     CAGGAGTCTGGGTTCACCGGTGGTCTCAACTACTATCGTGCTATGGACCT                         GAGTTGGGAGCTTCTTGCACCGTGGCAAGGATCAAAAATCACAATTCCATC
genomic: CAGGAGTCTGGGTTCACCGGTGGTCTCAACTACTATCGTGCTATGGACCTgtaagcacaa ... cctactacagGAGTTGGGAGCTTCTTGCACCGTGGCAAGGATCAAAAATCACAATTCCATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctattgatcaaggcctctactgtgtttttaaatgcatattgaatcctactacagGAGTTGGGAGCTTCTTGCACCGTGGCAAGGATCAAAAATCACAATTCCATCCAAGTTGATATTTGGTGACAAAGATATTGGTTTTAAAGACGGTGGTACA
  tattgat  putative branch site (score: 3)
                                            tcctact  putative PPT
                         tttttaaatgcatatt  TA-rich tract