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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcaaatctgaagtgagcttgatttccgaactttgacactgttaatattttgatttccatgtatactgctaagtaaatttgaaatattgcttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGCTTTTGGCAACCACCAGTCACCTG

Basic information

species Vitis vinifera
transcript Vv14s0068g00780.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G07510.1 (Glycine max), 3'ss of exon 5
gtatgttcaaatctgaagtgagcttgatttccgaactttgacactgttaatattttgatttccatgtatactgctaagtaaatttgaaatattgcttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGCTTTTGGCAACCACCAGTCACCTG
||||| | |||| |||| |||| ||    |   |  ||||    | || | |  |   || | |  | || | ||     |  || |   || || | |  |||||||||||||||||||||| || ||||||||||||||  ||||||| |||||||||||||| ||||| || ||||
gtatgct-aaatttgaactgagattaccgtttcatttttgtttgttttcacaactctgtt-ctagctgtaattcttgt--agcttaattgatggcatttgatcagGGTACTGGTTGCCACAGCTTTCATTGTTCTTGGGAATGTTTTTCTAGTTGCTTTTGGCAATCACCAATCGCCTG

upper sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 6
gtatgttcaaatctgaagtgagcttgat-ttccgaactttgacactgttaatattttgatttccatgtatactgctaagtaaatttgaaatattgcttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGCTTTTGGCAACCACCAGTCACCTG
||||| | |||| |||| || | ||  | || |  | ||      | | | ||  |   ||        || | ||     |  || |   || |  | || |||||||||||||||| ||||| || ||||||||||||||  ||||||| || ||||||||||| ||||| |||||||
gtatgct-aaatttgaactgcgattactgtttcatatttgtttgttttcactaactctgttctagctgttaatacttgt--agcttaattgatggtcttttatcagGGTACTGGTTGCAACAGCTTTCATTGTTCTTGGGAATGTTTTTCTAGTCGCTTTTGGCAATCACCAATCACCTG

upper sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G26670.3 (Arabidopsis thaliana), 3'ss of exon 5
gtatgttcaaatctgaagtgagcttgatttccgaactttgacac-tgttaatattttgatttccatgtatactgctaagtaaatttgaaatattgcttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGCTTTTGGCAACCACCAGTCACCTG
          ||   || | | || |   | | | |||| |||    |||    |||  |     | |   || ||||    || |  | |||  |||  |  ||| ||||| ||||| ||||||||||| |||||||| ||| |||| ||||| |||||||| || ||||||||||| |
--------gtatgcaaact-acctcg--ctgcaatctttaacatgcattaccgatttactaagtctctgctcttctaat---atctttagtatgccttggtcacagAGTACTCGTTGCTACAGCCTTTATAGTTCTTGGAAACGTTTTCCTTGTAGCTTTTGGTAATCACCAGTCACCAG

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|161706916|gb|FC057254.1|FC057254
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|351040762|gb|FQ438306.1|FQ438306
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|351046211|gb|FQ442589.1|FQ442589
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|351030030|gb|FQ430772.1|FQ430772
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|351043780|gb|FQ431332.1|FQ431332
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|351013510|gb|FQ425541.1|FQ425541
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|37184677|gb|CF604031.1|CF604031
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
EST: gi|352765309|gb|FQ466006.1|FQ466006
EST:     TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA                         GGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC
genomic: TCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAAgtatgttcaa ... ttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttgatttccatgtatactgctaagtaaatttgaaatattgcttcttttcagGGTACTGGTTGCCACAGCCTTTATTGTTCTTGGGAACATTTTTCTTGTTGCTTTTGGCAACCACCAGTCACCTG
  ttttgat  putative branch site (score: 4)
                                       tattgcttcttttc  putative PPT
                        taagtaaatttgaaat  TA-rich tract