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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgattttagttggaaaatttgtattgtcttttgttttttttttgggcatgttacaagtgtttttgttgtctctcacatttttagGGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTAACAAAG

Basic information

species Vitis vinifera
transcript Vv14s0060g00210.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA20G22190.2 (Glycine max), 3'ss of exon 13
-------------------------------------------gtaaatgatttta---gttggaaaa------tttgtattgtcttt---tgttttttttttgggcatgttacaagtgtttttgttgtctctcacatttttagGGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTAACAAAG
                                             | |||  || |     ||  | |      |||||  | ||| |   | || | || || |||| | || |   | || | || | |  ||   ||  ||||||| ||||| |||||||| ||||| ||||| ||||||||||| ||||| || |||
gtaataactattctctttgagaacttctaatatcttttcaaatacacatggattcacatactgacatacatatgtttgttctatctatatatattgtgttctttggcaagata-actagattgtattatgttgcattcttacagGGGTTAATAACATTTCTGGTTAATGAGAATGGTTTCAACAGTGATAGAGTGACTAAG

upper sequence: Vv14s0060g00210.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G26680.2 (Arabidopsis thaliana), 3'ss of exon 13
gtaaatgattttagttggaaaatttgtattgtcttttgtttt---ttttttgggcatgttacaagtgtttttgttgtctctcacatttttagGGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTAACAAAG
||| |    |     |     |||    |   |   | ||||   || || ||| || || |    ||   |  | |      | ||   ||||  |  |    ||| ||||||||||||||||||||||||  ||||| ||||| |||
gtagaaacctagttctcccctattctgctccacgcatattttggattcttcgggaatttttcttaggtacctccttttgtcttccttgccagGGTATAGTTCAGTTTTTGGTGAATGAAAATGGATTCAACATAGACAGGGTAACCAAG
















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|110418849|gb|EC985030.1|EC985030
EST:     TTTCTGATGATGAGCAACTTGACATCAAGTGGAGTGCTCCAGATGAAGAA                         GGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTA
genomic: TTTCTGATGATGAGCAACTTGACATCAAGTGGAGTGCTCCAGATGAAGAAgtaaatgatt ... acatttttagGGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTA
EST: gi|45770570|gb|CN006422.1|CN006422
EST:     GATGATGAGCAACTTGACATCAAGTGGAGTGCTCCAGATGAAGAA                         GGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTA
genomic: GATGATGAGCAACTTGACATCAAGTGGAGTGCTCCAGATGAAGAAgtaaatgatt ... acatttttagGGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttttttttgggcatgttacaagtgtttttgttgtctctcacatttttagGGGTTGATAACCTTTCTGGTGAATGAAAATGGATTCAACAGTGACAGAGTAACAAAG
                                        ctctcac  putative branch site (score: 3)
                                       tctctcacattttt  CT-rich tract
     ttttttttt  TA-rich tract