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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccctccatctttctctatattctaaaatccaattcccattatttttacaattttaagttgctgacttttaagggtatttggttcttaacaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCCTGATGGCTCAGTTCTCCGAGCCCGTCTGCCCGGACGCCCCACCCGGGAT

Basic information

species Vitis vinifera
transcript Vv11s0016g05770.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g05770.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g07600.1 (Oryza sativa), 3'ss of exon 3
gtccctccatctttctctatattctaaaatccaattcccattattt--ttacaattttaa-gttgctgacttttaagggtatttggttctta-acaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCCTGATGGCTCAGTTCTCCGAGCCCGTCTGCCCGGACGCCCCACCCGGGAT
             |    | | |  |      | ||   || | |   || | ||   || || ||| | || |    ||  ||||   |   |   ||||||||||||||| ||||||||||  || || || |||||  | |||||||| |||||||| ||||| || ||  | || || || || || |||  ||| 
------------gttcgcacaattcattcctgagttgttatgaatcaattgcgatgccaatgtagctcaattgt----gttcttggcaatggcattgcagTGATGCCCCTGGGAAGCACAACTTTGAGCTGCTGAAGAAGATGGTCTTGCCCGATGGCTCCGTTCTTCGCGCGTGGCTACCTGGCCGGCCAACCAAGGAC
















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|110718557|gb|EE095526.1|EE095526
EST:     GAGTACCATGCATCCGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAG                         TGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
genomic: GAGTACCATGCATCTGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAGgtccctccat ... ttaacaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
EST: gi|110720334|gb|EE096164.1|EE096164
EST:     GAGTACCATGCATCCGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAG                         TGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
genomic: GAGTACCATGCATCTGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAGgtccctccat ... ttaacaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
EST: gi|37184787|gb|CF604141.1|CF604141
EST:     GAGTACCATGCATCTGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAG                         TGATGCCCCTGGGAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
genomic: GAGTACCATGCATCTGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAGgtccctccat ... ttaacaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
EST: gi|110698330|gb|EE075722.1|EE075722
EST:     GAGTACCATGCATCTGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAG                         TGATGCCCCTGGGAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC
genomic: GAGTACCATGCATCTGCCAGAGCCATCAGCGGTGGCCCCATCTACGTCAGgtccctccat ... ttaacaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttttacaattttaagttgctgacttttaagggtatttggttcttaacaacagTGATGCCCCTGGTAAGCACAACTACGAACTCCTCAAGAAACTTGTCTTGCCTGATGGCTCAGTTCTCCGAGCCCGTCTGCCCGGACGCCCCACCCGGGAT
                                           tcttaac  putative branch site (score: 2)
                                          ttctt  CT-rich tract
     ttacaattttaagtt  TA-rich tract