Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggtagtttcgtcattcacactcttcaatagaaagaccgaacagtgcatacttatttttattttatttcttgatgggaaatctttttcaccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAGAAGCAAGTGGGGAGAAACTTTGGAGAATGCCTATGGAGGAGAGTTATTG

Basic information

species Vitis vinifera
transcript Vv11s0037g00180.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0037g00180.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G30910.1 (Arabidopsis thaliana), 3'ss of exon 8
ttggtagtttcgtcattcacactcttcaatagaaagaccgaacagtgcatacttatttttattttatttcttgatgggaaatctttttcaccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAGAAGCAAGTGGGGAGAAACTTTGGAGAATGCCTATGGAGGAGAGTTATTG
               | || | ||||   || |||      ||||     || |  |||  |  |  ||    || ||      ||||    ||   ||||  | |  ||  | |||||||| ||||| || |||||| | || || ||| |    ||||| |||||  | ||||||||||||||||| |||||||||||
--------------gtacatagtcttgtgtataaaa--tagacagaatg-acattctttcgtgatgattgaatattggtttcgatttttgatttctgcagGCATGTACACAGCTAGTGATGAGCTTGCCAAGGAGGTAATTGCTGCATCACAGAGGAGTGGAGAGAAGTTATGGAGAATGCCTATGGAAGAGAGTTATTG
















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|110395105|gb|EC960661.1|EC960661
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTAGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110387421|gb|EC952084.1|EC952084
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|351027495|gb|FQ444744.1|FQ444744
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|26266040|gb|CA817103.1|CA817103
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTGGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110391662|gb|EC956652.1|EC956652
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110407927|gb|EC973545.1|EC973545
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|34414873|gb|CF413627.1|CF413627
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110423246|gb|EC989587.1|EC989587
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|71885860|gb|DT034915.1|DT034915
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110378787|gb|EC943935.1|EC943935
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352782298|gb|FQ470200.1|FQ470200
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|349826195|gb|FQ416000.1|FQ416000
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|351024424|gb|FQ426233.1|FQ426233
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352773488|gb|FQ472270.1|FQ472270
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|71884348|gb|DT033403.1|DT033403
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGAACCTTGCTA
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGA-CCTTGCTA
EST: gi|77586433|gb|DV222342.1|DV222342
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352782236|gb|FQ470138.1|FQ470138
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|351023125|gb|FQ432508.1|FQ432508
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352781590|gb|FQ468888.1|FQ468888
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110359619|gb|EC921397.1|EC921397
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110719195|gb|EE096892.1|EE096892
EST:     ANCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAG-TACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352782198|gb|FQ470100.1|FQ470100
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110368156|gb|EC932124.1|EC932124
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110700000|gb|EE077540.1|EE077540
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110373451|gb|EC937689.1|EC937689
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352774164|gb|FQ474687.1|FQ474687
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|352773813|gb|FQ472595.1|FQ472595
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|349826711|gb|FQ418802.1|FQ418802
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110730945|gb|EE108605.1|EE108605
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
EST: gi|110356896|gb|EC920053.1|EC920053
EST:     AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAG                         GTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG
genomic: AGCAACATTAACTGGGGCCTGTGTAGTTGCTCTTGGGCCCTCAATTGCAGgtatgtacat ... ccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatacttatttttattttatttcttgatgggaaatctttttcaccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAGAAGCAAGTGGGGAGAAACTTTGGAGAATGCCTATGGAGGAGAGTTATTG
                       tcttgat  putative branch site (score: 4)
                                    tctttttcacctt  putative PPT
     acttatttttatttta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttggtagtttcgtcattcacactcttcaatagaaagaccgaacagtgcatacttatttttattttatttcttgatgggaaatctttttcaccttgaacagGTGTCTTTACGCCCAGTGATGACCTTGCTAAAGAGGTACTAGCAGCTTCAGAAGCAAGTGGGGAGAAACTTTGGAGAATGCCTATGGAGGAGAGTTATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - -cacactc
- - - - - - - - - - - - - - - -gaaagac
- - - - - - - - - - - - - - - - - - - - - - gtgcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaatc