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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catatctagaatattctatacaaatatagctgttataacagattaaataaatgctagtatgctagaactgttgtaagatgtggttgtgttgagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGACCGGGCGTATTTTGAAGCGACGGCTTTGAGAGAGCAGCGTCGCTGGTGCT

Basic information

species Vitis vinifera
transcript Vv03s0091g00100.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 1
----catatctagaatatt-ctatacaaatatagctgttataacagattaaataaatgctagtatgctagaactgttgtaa-----gatgtggttgtgttgagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGACCGGGCGTATTTTGAAGCGACGGCTTTGAGAGAGCAGCGTCGCTGGTGCT
    || |   | | | |  | || ||   | | |    | ||    ||   |   |  |  |   | | | |    | ||      || | ||| | ||    ||  ||||  |||||||| | ||| | ||||||||||||||||| |||||||||||  | |||||||||||  ||  |||  ||| |||  || |||| |    | 
gtaacaaacaaacactttcacgattcagccaaaacccaaaaaaacactttttttttttatgttccacaaaatcacgggcaatcgccaatttcgtt-tctttcttgtatagGCTCTGCCGTACGTTCGTTGCATAGGGGAATCGTGGCCTATGACGAAGGAGAGAGCGTATTTTGAGTCGCTGGCACTGAAAGAAGAGGGTCGTTTAATCC

upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 1
catatctagaatattctatacaaatatagctgttataacagattaaataaatgctagtatgctagaactgttgtaagatgtggttgtgttgagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGACCGGGCGTATTTTGAAGCGACGGCTTTGAGAGAGCAGCGTCGCTGGTGCT
                 | ||| | | |  | || |   |  ||  | |||    |  |||    | |     |    |||  || |  | |   |  ||||  |||| ||| | ||| | ||||||||||||||||| |||||||||||  | |||||||||||  |   |||  ||| |||  || |||| | | || 
--------------gtaacacacaaacactttttgttttatgtttcacaaa----atcatgggcaatcgccaatttcgtgtctttcttctta---tatagGCTCTGCCATACGTTCGTTGCATAGGGGAATCGTGGCCTATGACGAAGGAGAGAGCGTATTTTGAGTCACTGGCACTGAAAGAAGAGGGTCGTTTGAGCC

upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G40730.2 (Glycine max), 3'ss of exon 1
catatctagaatattctatacaaatatagctgttataacagattaaataaatgctagtatgctagaactgttgtaagatgtggttgtgttgagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGACCGGGCGTATTTTGAAGCGACGGCTTTGAGAGAGCAGCGTCGCTGGTGCT-------------------------
                 | ||| | | |  | || |   |  ||  | |||    |  |||    | |     |    |||  || |  | |   |  ||||  |||| ||| | ||| | ||||||||||||||||| |||||||||||  | |||||||||||  |   |||  ||| |||  || |||| | | ||                          
--------------gtaacacacaaacactttttgttttatgtttcacaaa----atcatgggcaatcgccaatttcgtgtctttcttctta---tataggctctgccatacgttcgttgcatagGGGAATCGTGGCCTATGACGAAGGAGAGAGCGTATTTTGAGTCACTGGCACTGAAAGAAGAGGGTCGTTTGAGCCCCGAACATGTTCCTGAAGTATATCA

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|351053951|gb|FQ441717.1|FQ441717
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|352795531|gb|FQ480119.1|FQ480119
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351021600|gb|FQ429704.1|FQ429704
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCATCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351015716|gb|FQ431671.1|FQ431671
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351020060|gb|FQ445667.1|FQ445667
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351052205|gb|FQ450775.1|FQ450775
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|352798346|gb|FQ480371.1|FQ480371
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351053009|gb|FQ456616.1|FQ456616
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351052049|gb|FQ455342.1|FQ455342
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|352794035|gb|FQ479277.1|FQ479277
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351052499|gb|FQ456347.1|FQ456347
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351054387|gb|FQ450470.1|FQ450470
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351040809|gb|FQ438353.1|FQ438353
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351027484|gb|FQ444733.1|FQ444733
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351033599|gb|FQ447758.1|FQ447758
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351032729|gb|FQ462443.1|FQ462443
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351022326|gb|FQ445101.1|FQ445101
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351026100|gb|FQ428112.1|FQ428112
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|351014552|gb|FQ437554.1|FQ437554
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCATACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
EST: gi|349832837|gb|FQ422959.1|FQ422959
EST:     ACTTCGTCTACGTCGTCATCTCTTCTGCCGGCTCCTTCGTCATCAAACAG                         GCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC
genomic: ACTTCGTCTACGTCGTCATCTCTTCCGCCGGCTCCTTCGTCATCAAACAGgtacaaattt ... gagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catatctagaatattctatacaaatatagctgttataacagattaaataaatgctagtatgctagaactgttgtaagatgtggttgtgttgagagtgcagGCGTTGCCGTACATACGTAGTATAGGGGAATCGTGGCCGATGACGAAGGACCGGGCGTATTTTGAAGCGACGGCTTTGAGAGAGCAGCGTCGCTGGTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - -atacaaa
- - - - - - - - - - - - - - - - - -taacaga
- - - - - - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtg