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'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGTTTGGGACGAAGCCAAGTTTCCCACGATGTCACCTCTGAGGGAGATCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaacaaaagtcccatatgcagatccgttattcaaattttaaacgattaaacacattatagtttatcattcagtggtaactttgttctcctgaacc...

Basic information

species Vitis vinifera
transcript Vv14s0068g01280.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA19G27360.1 (Glycine max), 5'ss of exon 4
ATTTGTTTGGGACGAAGCCAAGTTTCCCACGATGTCACCTCTGAGGGAGATCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaacaaaagtcccatatgcagatccgttattcaaattttaaacgatta----aacacattatagttt---atcattcagtggtaactttgttctcctgaacc
 ||||||||||| || || ||||  || || ||||| ||| ||| ||||||||||||| |||||||   ||||||  ||||||||||||||||||| |||||||| |       ||    |      ||    ||| |     |      ||     || |  || ||||     |||||||  |  ||      |       |   
GTTTGTTTGGGATGAGGCAAAGTACCCGACCATGTCGCCTTTGAAGGAGATCGTGGATGGTATTCACAGTCAAGTGGCAAAGATCGAGGATGATCTCAAGgtattcattt----tcttgcagctttctcttagatttaggagatgggtagttgtagcaatatgttgtagtgctgaatcattcgtttatagtgggatcgcggcta---

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA16G05470.1 (Glycine max), 5'ss of exon 4
ATTTGTTTGGGACGAAGCCAAGTTTCCCACGATGTCACCTCTGAGGGAGATCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaacaaaagtcccatatgcagatccgttattcaaattttaaacgattaaacac-attatagtttatcattcagtggtaactttgttctcctgaacc----------
 ||||||||||| || || ||||  || || ||||| ||| ||| |||||| |||||| |||||||   ||||||  ||||||| ||||||||||| |||||||   |   || | |    ||||| |   || |   |  ||||   |||         |   | | | |  ||  |||||  || |||  | ||||| |          
GTTTGTTTGGGATGAGGCAAAGTACCCGACCATGTCGCCTTTGAAGGAGATTGTGGATGGTATTCACAGTCAAGTGGCAAAGATTGAGGATGATCTCAAGgtat---attcaattact---tgcagct---ttctgttagatttaggagatgggttgttgtagcaatatgttgttgtgtggt--ctctgtagtgctgaatcgttcctttat
















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|351031454|gb|FQ446657.1|FQ446657
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|349830231|gb|FQ420491.1|FQ420491
EST:     TCGTGGATAGTATTCATCATCAAGTATCAATGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|351024893|gb|FQ433310.1|FQ433310
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|71881861|gb|DT030916.1|DT030916
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|110699022|gb|EE077184.1|EE077184
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|110693329|gb|EE069475.1|EE069475
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|349833078|gb|FQ416456.1|FQ416456
EST:     TCGTGGATAGTATTCATCATCAAGTATCAATGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|71882447|gb|DT031502.1|DT031502
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|27581998|gb|CB004693.1|CB004693
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|161716182|gb|FC069494.1|FC069494
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|351013608|gb|FQ429749.1|FQ429749
EST:     CAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: CAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|71883798|gb|DT032853.1|DT032853
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|71858149|gb|DT007204.1|DT007204
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATAAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|351020303|gb|FQ445910.1|FQ445910
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|71887796|gb|DT036851.1|DT036851
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|110693330|gb|EE069469.1|EE069469
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|110700866|gb|EE077894.1|EE077894
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
EST: gi|294964114|gb|GW837917.1|GW837917
EST:     TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGC
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGC
EST: gi|349830278|gb|FQ420538.1|FQ420538
EST:     TCGTGGATAGTATTCATCATCAAGTATCAATGATCGAGGATGATCTTAAG                         GTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT
genomic: TCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaaca ... cttatgctagGTTCGCATTGCTGAGTATAATAATGTGCGCAGTCAGCTCAATGCTATTAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTGTTTGGGACGAAGCCAAGTTTCCCACGATGTCACCTCTGAGGGAGATCGTGGATAGTATTCATCATCAAGTATCAAAGATCGAGGATGATCTTAAGgtattgaacaaaagtcccatatgcagatccgttattcaaattttaaacgattaaacacattatagtttatcattcagtggtaactttgttctcctgaacc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaca