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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatggtttgtttgactgtgaatttctcatgtttggtgaataaaaaatggtgcaatttgttgatgtttttcactcttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGCCTTGGAAATAGGCAATATGAGCATTTCAATAAG

Basic information

species Vitis vinifera
transcript Vv11s0052g00880.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G00990.1 (Glycine max), 3'ss of exon 4
gtaaatatggtttgtttgactgtgaatttctcatgtttggtgaataaaaaatggtgcaatttgttgatgtttttcactcttgagtgt---agGGGAAAGAGAGAGGGGAA---TGGCTTCAAAATCTTAAATACGGAGTGTTTGGCCTTGGAAATAGGCAATATGAGCATTTCAATAAG
|| | | ||    |     | |||   ||   |||||  | |   ||  | ||| |  || ||||||  || | | || ||   |||   |||||   |||| ||| |||   |||||| | |||||| | || || ||||||||||||||||| ||||||||||||||||| || |||
gtgagtttgagacgggctccggtggcatta--atgttgagagtgaaatgattgg-gttatgtgttgactttgtgctctttttgttgttttagGGGGGTGAGAAAGGAGAAGGATGGCTTGAGAATCTTCACTATGGTGTGTTTGGCCTTGGAAACAGGCAATATGAGCATTTTAACAAG

upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 4
gtaaatatggtttgtttgactgtgaatttctcatgtttggtgaataaaaaatggtgcaatttgttgatgtttttcactcttgagtgtagGGGAAAGAGAGAGGGGAA---TGGCTTCAAAATCTTAAATACGGAGTGTTTGGCCTTGGAAATAGGCAATATGAGCATTTCAATAAG
         ||  ||||||   ||  || |    |  |   |  | | |  |  ||   |   ||  |||  ||   |   |  | ||||||   |||| ||| |||   |||||||| |||||| | || || ||||||||||||||||| ||||| ||||||||||| || |||
---------gtgagtttgagactg--ttccggtggcattaaggttgagagcttatgtgttgactttgtgtgcttttgtggaggatttagGGGGGTGAGAAAGGAGAAGGGTGGCTTCAGAATCTTCACTATGGTGTGTTTGGCCTTGGAAACAGGCAGTATGAGCATTTTAACAAG
















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|161721502|gb|FC069730.1|FC069730
EST:     ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG                         GGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
genomic: ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAGgtaaatatgg ... ttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
EST: gi|352768225|gb|FQ469400.1|FQ469400
EST:     ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG                         GGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTGGGC
genomic: ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAGgtaaatatgg ... ttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
EST: gi|352774217|gb|FQ474740.1|FQ474740
EST:     ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG                         GGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
genomic: ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAGgtaaatatgg ... ttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
EST: gi|352781981|gb|FQ469279.1|FQ469279
EST:     ATGGTGAGCCCACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG                         GGGAAAGAGAGAGGGGAATGGCTTCAAAAT
genomic: ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAGgtaaatatgg ... ttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAAT
EST: gi|71863842|gb|DT012897.1|DT012897
EST:     ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG                         GGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
genomic: ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAGgtaaatatgg ... ttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGC
EST: gi|352772720|gb|FQ473758.1|FQ473758
EST:     ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG                         GGGAAAGAGAGAGGGGAA
genomic: ATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAGgtaaatatgg ... ttgagtgtagGGGAAAGAGAGAGGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttggtgaataaaaaatggtgcaatttgttgatgtttttcactcttgagtgtagGGGAAAGAGAGAGGGGAATGGCTTCAAAATCTTAAATACGGAGTGTTTGGCCTTGGAAATAGGCAATATGAGCATTTCAATAAG
                           tgttgat  putative branch site (score: 4)
                                 tgtttttcactctt  CT-rich tract
      tgaataaaaaat  TA-rich tract