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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaagatacaatttgttgttcattgttcttatcatgcaaatgcatagatattaatcctttttgctttggcagATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTGGGCGCGTGGACCAAACACAGTGGCATCCAGATTATTGCAGCCCCCGTGT

Basic information

species Vitis vinifera
transcript Vv16s0039g00310.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0039g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G16200.1 (Glycine max), 3'ss of exon 5
gtaacaagatacaatttgttgttcattgttcttatcatgcaaatgcatag-atatt-------aatcctttttgctttggcagATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTGGGCGCGTGGACCAAACACAGTGGCATCCAGATTATTGCAGCCCCCGTGT
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gtaa-agaataccattcctttttcttttcttgtgggagcgcaatttatagcatactgttgagtagtgttttctgatct--cagATGCCATTCTTGAGTACTTCTTAGAAGCTGCAATGGATAATTTCACTATTGGGCGCGTGGAACAAACGCTCTGGCACCCTGATTATTGCAGCAATCGTGT
















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|110430181|gb|EC996719.1|EC996719
EST:     GCTATGTGGGGCTCAAACAACAATTGTTTTGGCTGGAGAACTTCGAAATG                         ATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTG
genomic: GCTATGTGGGGCTCAAACAACAATTGTTTTGGCTGGAGAACTTCGAAATGgtaacaagat ... gctttggcagATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTG
EST: gi|28960899|gb|CB340457.1|CB340457
EST:     GCTATGTGGGGCTCAAACAACAATTGTT--GGCTGGAGAACTTCGAAATG                         ATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTG
genomic: GCTATGTGGGGCTCAAACAACAATTGTTTTGGCTGGAGAACTTCGAAATGgtaacaagat ... gctttggcagATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcattgttcttatcatgcaaatgcatagatattaatcctttttgctttggcagATTCCATCCTAGAATACTTTTTAGAAGCTGCAATGAAGGATTTCATGGTTGGGCGCGTGGACCAAACACAGTGGCATCCAGATTATTGCAGCCCCCGTGT
                               tattaat  putative branch site (score: 2)
                                     tcctttttgcttt  CT-rich tract
                              atattaatccttttt  TA-rich tract