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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   		32  
 5'  3'   		33  
 5'  3'   		34  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCATATGGGGTACTATCATTTGGGGGTGAGGAAGGGGGAAAGAATCCAAAAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttcttgtttttttctttatgtttgtgccttctagttaagtcatttcataattctctaacaaaacaatgttgcagaaaatgcaattgctgccttatgctccatctgtcattggttcttcttatgctttcagttggaaatccatatttgttcaagttatttccattttacccctttgacag

Basic information

species Vitis vinifera
transcript Vv16s0050g00490.t01
intron # 27
splice site 5'
intron type U2

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|351039026|gb|FQ457701.1|FQ457701
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351056447|gb|FQ454308.1|FQ454308
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|349818352|gb|FQ409127.1|FQ409127
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351042671|gb|FQ451086.1|FQ451086
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351034908|gb|FQ458265.1|FQ458265
EST:     AAAAGAATCCCGTGTCTTGTCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351035476|gb|FQ463321.1|FQ463321
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351045622|gb|FQ440807.1|FQ440807
EST:     AAAAGAATCCCGTGTCTTATCAGACATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|30305348|gb|CB982142.1|CB982142
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351038517|gb|FQ464383.1|FQ464383
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAAGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|349819862|gb|FQ404534.1|FQ404534
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|352795665|gb|FQ480253.1|FQ480253
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351056626|gb|FQ442454.1|FQ442454
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351047462|gb|FQ454954.1|FQ454954
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351026108|gb|FQ428120.1|FQ428120
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|71875416|gb|DT024471.1|DT024471
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351051717|gb|FQ449531.1|FQ449531
EST:     AAAAGAATCCCGGGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTCCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
EST: gi|351053468|gb|FQ459215.1|FQ459215
EST:     AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAG                         GTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG
genomic: AAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttct ... cctttgacagGTTGACGAGGAAAAAGGAAAAGGTTCTTCTCCATCTTGCACCAAAAGTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCATATGGGGTACTATCATTTGGGGGTGAGGAAGGGGGAAAGAATCCAAAAAAGAATCCCGTGTCTTATCAGATATCTTATCTAGTGCCACCAAACAAGgttgttttcttgtttttttctttatgtttgtgccttctagttaagtcatttcataattctctaacaaaacaatgttgcagaaaatgcaattgctgccttatgctccatctgtcattggttcttcttatgctttcagttggaaatccatatttgttcaagttatttccattttacccctttgacag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA