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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtttccatttgacccttttaatgtgatgttgggtttttgatttatatgcaccttttgatatccaatgtcccttcaagggttcacttgaattctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTGATGTGCTTATTCGTGCAAAAGAG

Basic information

species Vitis vinifera
transcript Vv14s0060g02160.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g02160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G42180.2 (Glycine max), 3'ss of exon 5
gtttgtttccatttgacccttttaatgtgatgttgggtttttgatttatatgcaccttttgatatccaatgtcccttcaagggttcacttgaattctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTGATGTGCTTATTCGTGCAAAAGAG
                    |  | | ||   ||   ||| ||  ||   ||  |||||  ||  |  |      |   ||  |||  |||| ||||||||||||||||||||| || |||||| |||| || ||||| || ||||| || |||||||| |||||||||||||| |||
-------------------gtacagtttggatttaactttgtggctt---tgttccttt-aattccttacagatgtaatagttttctattgatttctgtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG

upper sequence: Vv14s0060g02160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G39570.1 (Glycine max), 3'ss of exon 5
gtttgtttccatttgacccttttaatgtgatgttgggtttttgatttatatgcaccttttgatatccaatgtcccttcaagggttcacttgaattctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTGATGTGCTTATTCGTGCAAAAGAG
                    |  ||| ||   ||   ||| ||  ||   ||  |||||  ||  |  |   |  |   ||  |||  |||| ||| ||||||||||||||||| || |||||| |||| || ||||| || ||||| || |||||||| |||||||||||||| |||
-------------------gtacaatttggatttaactttgtggctt---tgttccttt-aattccttacagctgtaatagttttctattgatttcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG
















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|34544987|gb|CF513219.1|CF513219
EST:     GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAG                         CCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
genomic: GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAGgtttgtttcc ... tctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
EST: gi|110375703|gb|EC940714.1|EC940714
EST:     GCTTGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCACATGCCAAAG                         CCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
genomic: GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAGgtttgtttcc ... tctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
EST: gi|110385484|gb|EC950016.1|EC950016
EST:     GCTTGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCACATGCCAAAG                         CCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
genomic: GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAGgtttgtttcc ... tctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
EST: gi|110383404|gb|EC947776.1|EC947776
EST:     GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAG                         CCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
genomic: GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAGgtttgtttcc ... tctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
EST: gi|34545979|gb|CF514211.1|CF514211
EST:     GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAG                         CCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG
genomic: GCTCGCTGCAGGAACCAAGGGTAAACGGTTTATGATGCCGCATGCCAAAGgtttgtttcc ... tctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcaccttttgatatccaatgtcccttcaagggttcacttgaattctgtttcagCCATGATTCAACAACCTCGTGTTCCATCATCTGGATTAATGCCAGCTAGTGATGTGCTTATTCGTGCAAAAGAG
       ttttgat  putative branch site (score: 4)
                                            ttctgtttc  putative PPT
       ttttgatat  TA-rich tract