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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctcccattttgcttgtagctcgtttgcacaattcacattgcatgtttttggatatttccaaattaccataatgaaattctgtgtatcattcctaatcaaattcccttatcttgcatcagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTGGCACCATATGACCATTACGTTGTAAACTCAGTTTTGCGTGTCACCTTGA

Basic information

species Vitis vinifera
transcript Vv00s0333g00020.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 8
gtaagctcccattttgcttgtagctcgtttgcacaattcacattgcatgtttttggatatttccaaattaccataatgaaattctgtgtatcattcctaatcaaattcccttatcttgcat-cagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTGGCACCATATGACCATTACGTTGTAAACTCAGTTTTGCGTGTCACCTTGA
                    ||  | | ||   || ||  ||||   | ||||||  ||  |      | | | | | ||   |  | |      | | |||    |   || |||||| | |||||||||| ||||||||||||| | |||||||| ||||||| |   ||| |    ||      ||    | || |       |  ||  || ||  ||   
-------------------ttaatttgctttttcatttt-cattttctatttttgattaaatttt--ctgctaaagtaaacagccatatgaacaccatcatcg---ttgtttctcttgccttcagGTTCATCGGAAGACACTTCAAGTGCTTCAGGAGATAGCATATGGCTAGTTCTATCCCCCCCCCCCCCCCTTTTTTTCTCTGGCATTTTGTATCCACTGTT

upper sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G09430.1 (Glycine max), 3'ss of exon 8
gtaagctcccattttgcttgtagctcgtttgcacaattcacattgcatgtttttggatatttccaaattacca-taatgaaattctgtgtatcattcctaatcaaattcccttatcttgcat-cagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTGGCACCATATGACCATTACGTTGTAAACTCAGTTTTGCGTGTCACCTTGA
                            ||  ||  ||    || |   ||     || |||  || | |  |   ||   |     |  || |||  |  ||   |||  |  |||||| | |||||||||| ||||||||||||| | |||||||| ||||||| |   ||| |  | |    |     ||| |                              
--------------------------agttttactgttagttttactgattaaattatcttttaaagtaatgagccatatgaacaccttcatgattgtttctcttgttctttactcttgctttcagGTTCATCGGAAGACACTTCAAGTGCTTCAGGAGATAGCATATGGCTAGTTCTCTCTCCTTTTTTCTTATG------------------------------
















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|33405424|gb|CF211051.1|CF211051
EST:     GTATATATGGTGGAAATATCTCTGGCATCACAGCGCAACACCTCGAATGG                         GTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTG
genomic: GTATATATGGTGGAAATATCTCTGGCATCACAGCGCAACACCTCGAATGGgtaagctccc ... cttgcatcagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTG
EST: gi|51051659|gb|CO819167.1|CO819167
EST:     GTATATATGGTGGAAATATTTCTGGCATCACAGCGCAACACCTCGAATGG                         GTTCATCAGAAGACACTTCAAATTTTTCAGGAAATAGCATTTTCGTAGCTG
genomic: GTATATATGGTGGAAATATCTCTGGCATCACAGCGCAACACCTCGAATGGgtaagctccc ... cttgcatcagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTG
EST: gi|33405487|gb|CF211114.1|CF211114
EST:     GTATATATGGTGGAAATATCTCTGGCATCACAGCGCAACACCTCGAATGG                         GTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTG
genomic: GTATATATGGTGGAAATATCTCTGGCATCACAGCGCAACACCTCGAATGGgtaagctccc ... cttgcatcagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accataatgaaattctgtgtatcattcctaatcaaattcccttatcttgcatcagGTTCATCAGAAGACACTTCAAATTCTTCAGGAAATAGCATTTTCGTAGCTGGCACCATATGACCATTACGTTGTAAACTCAGTTTTGCGTGTCACCTTGA
                         tcctaat  putative branch site (score: 2)
                                    ttcccttatcttgc  putative PPT
                            taatcaaatt  TA-rich tract