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

CTGGTCGGTGTCTCTTCCAGTTCGAACCTCCGCTTCTTCACTATGGAATCGTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatccccgtatttttctcatctctctccataattcaaatatttcattttcttgttactagcttctctctcttttttttgtttgtcttttgcag

Basic information

species Vitis vinifera
transcript Vv14s0068g01280.t01
intron # 1
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 1
lower sequence: GLYMA16G05470.1 (Glycine max), 5'ss of exon 1
CTGGTCGGTGTCTCTTCCAGTTCGAACCTCCGCTTCTTCACTATGGAATCGTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatccccgtatttttctcatctctctccataattcaaatatttcattttcttgttactagcttctctctcttttttttgtttgtcttttgcag
|||| | ||||||||||| || |  | |||||| |||   || ||||| |  || |||||    || || ||||||||||||||||||||||||||||| |||            ||| |  | ||        |||||  ||  |     | |   || || | || | |   |||| || || | ||||    ||||
CTGGGCAGTGTCTCTTCCCGTCCCCAACTCCGCATCTCAGCTCTGGAACCAATTCCAGGAACGAATCTCCAAGCATTCCTTCGACACTCCTCTCTACAGAgta------------attctatttata-------ataat--aatcacactctctctctgctatttgcctattgatcttcttcttctctgtc----gcag

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA19G27360.1 (Glycine max), 5'ss of exon 1
CTGGTCGGTGTCTCTTCCAGTTCGAACCTCCGCTTCTTC---ACTATGGAATCGTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatccccgtatttttctcatctctctccataattcaaatatttcattttcttgttactagcttctctctcttttttttgtttgtcttttgcag
   | | ||||||||||| || |  | ||| || || ||    || ||||| |  || |||||    || || ||||||||||||||||| ||||||||||| |||               || || || | |  | |||||   |||| ||  |||   || || | |||  |   |||| || |  | || ||   ||||
---GGCAGTGTCTCTTCCCGTCCACAACTCGGCATCATCTCAGCTCTGGAACCAATTGCAGGAACGAATCTCCAAGCATTCCTTCGACACACCTCTCTACAGAgtaa--------------ttactaatatataacaataataataataattactttctctgctattcgctcgttgatcttcttctcttctggctc--gcag
















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:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|349830231|gb|FQ420491.1|FQ420491
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACGCTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|351024893|gb|FQ433310.1|FQ433310
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|71881861|gb|DT030916.1|DT030916
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|110699022|gb|EE077184.1|EE077184
EST:     CATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: CATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|110693329|gb|EE069475.1|EE069475
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|349833078|gb|FQ416456.1|FQ416456
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|71882447|gb|DT031502.1|DT031502
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|27581998|gb|CB004693.1|CB004693
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|352785589|gb|FQ475592.1|FQ475592
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|71883798|gb|DT032853.1|DT032853
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|71858149|gb|DT007204.1|DT007204
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|351020303|gb|FQ445910.1|FQ445910
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|110693330|gb|EE069469.1|EE069469
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|110700866|gb|EE077894.1|EE077894
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|294964114|gb|GW837917.1|GW837917
EST:     GTTTACGGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
EST: gi|349830278|gb|FQ420538.1|FQ420538
EST:     GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACGCTCCTCTCTACAGG                         TTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC
genomic: GTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatc ... tcttttgcagTTCAATATCCCTAATCTCCGTGTAGGAACCCTAGATTCCCTATTATCCCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGGTCGGTGTCTCTTCCAGTTCGAACCTCCGCTTCTTCACTATGGAATCGTTTACAGGACGCCATTTCTAAGCATTCCTTCGACACTCCTCTCTACAGGgtacgccatccccgtatttttctcatctctctccataattcaaatatttcattttcttgttactagcttctctctcttttttttgtttgtcttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC