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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttaaaaagtatatcaagtcaaattgatatttctataactttcatccatgtttgaattattcactatggggactaattgtgtcgtgtttggtgtaagGCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACTGGGGGTGCAATATCAGCAAAAG

Basic information

species Vitis vinifera
transcript Vv06s0004g07140.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g07140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G01980.2 (Glycine max), 3'ss of exon 3
gtactttaaaaagtatatcaagtcaaattgatatttctataactttcatccatgtttga---attattcactatggggactaattgtgtcgtgtttggtgtaagGCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACTGGGGGTGCAATATCAGCAAAAG
||   ||  |    ||     |   |||  | |||| |||     | |  |||||  |    ||| |||    |     |||  |   |  | |||  |   |||| || ||||||||||| | ||||||||| |||||||| || ||||  ||||| |||||||||||||||||||
gtctattggatttgatcatttgaggaatgaaaatttatatttacattaagcatgtaaggttcattcttcttcttaccatctaggtccttgattttttttcacagGCTCGAGCAAAACATGACATAACAAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAG

upper sequence: Vv06s0004g07140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G35780.1 (Glycine max), 3'ss of exon 3
gtactttaaaaagtatatcaagtcaaattgatatttctataactttcatccatgtttgaattattcactatggggactaattgtgtcgt--gtttggtgtaa--gGCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACTGGGGGTGCAATATCAGCAAAAG
||   ||  |    ||     |  ||||  | || | |||     | |  |||||  |  | ||||   ||    || |  |||||| |  ||||  | | |  ||| || ||||||||||| | ||||||||| |||||||| || ||||  ||||| |||||||||||||||||||
gtctattggatttgatcatttgagaaatgaaaatatatatttacattaagcatgtaaggttcattcttcatctt-accatctgtgtccttggttttatttcacagGCTCGAGCAAAACATGACATAACAAATACCGTTGTTGCTGGATGTGCAACTGGAGGTGCAATATCAGCAAAAG
















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|110361837|gb|EC925337.1|EC925337
EST:     TTGCTGTGATGGGCTTGATATTCTCAGCTGCAGAATGTGTAGTTGAGAAG                         GCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACT
genomic: TTGCTGTGATGGGCTTGATATTCTCAGCTGCAGAATGTGTAGTTGAGAAGgtactttaaa ... ttggtgtaagGCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACT
EST: gi|110385470|gb|EC950002.1|EC950002
EST:     TGGGCTTGATATTCTCAGCTGCAGAATGTGTAGTTGAGAAG                         GCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACC
genomic: TGGGCTTGATATTCTCAGCTGCAGAATGTGTAGTTGAGAAGgtactttaaa ... ttggtgtaagGCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catccatgtttgaattattcactatggggactaattgtgtcgtgtttggtgtaagGCGCGTGCAAAACATGATACAACAAATACAGTTGTTGCGGGGTGTGTTACTGGGGGTGCAATATCAGCAAAAG
                            gactaat  putative branch site (score: 2)
     atgtttgaattatt  TA-rich tract