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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattatttatatatgtataaatattctattcctattttaaagggaagaaaccaagtggtgtcacacctttttcaaaacatcaaactactacatatgga...

Basic information

species Vitis vinifera
transcript Vv14s0060g02220.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA19G42150.1 (Glycine max), 5'ss of exon 7
GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattat---ttatatatgtataaatatt-ctattcctattttaaagggaagaaaccaagtggtgt-cacacctttttcaaaacatcaaactactacatatgga
|| || |||||||| ||||| || ||||||||||||||||||||||||||||||||||| ||| ||||  | ||||||||||  ||   | |    |   || |  ||  | ||  ||| |   |  | |      ||||  | |   ||  |  ||| | | ||     | | |        
GTTGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatagatcagcactacttagacgttatttttattatgtctgaatgcaatggttaagttatatgtgcatgtccttccatatatttttttgcaattc-----

upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA03G39530.1 (Glycine max), 5'ss of exon 7
GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattatttatatatg-tataaatattctattcctatt---ttaaagggaagaaaccaagtggtgt-cacacctttttcaaaacatcaaactactacatatgga
|| || |||||||| ||||| || ||||||||||||||||||||||||||||||||||| ||| ||||  | ||||||||||  ||  ||      ||   | |   ||||  ||||   |   |  | |      ||||  | |   ||  |  ||| | | ||     | | |        
GTCGGTGCCCATTATTTTGAGGAAGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAAGATGCAACTCTTTTTCAGgttaccatacattagcactacttagacattatttttattaggtctgaatgtattggttaagttatatgtgcatttccttccatatatttttttgcaattc-----

upper sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT3G05520.1 (Arabidopsis thaliana), 5'ss of exon 7
GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattatttatatatgtataaatattctattcctattttaaagggaagaaaccaagtggtgtca-cacctttttcaaaacatca-aactactacatatgga------------------------------------------
|| || || ||||| |||||||||||||||||| | |||||||||||| | || | | | ||||||||||||||||||||   |  || ||| ||   || | |     | | ||  |  ||   | || ||| |    |  | ||  |  |  | | ||    ||| | ||  | | |                                           
GTAGGAGCTCATTATTTTGAAGAGGGAAATGTGGAATTAGATGCAAAAAAAGATTTCCAAGATTCAACAATATTTCAGgtacctcattttatctgcgaaactgtg----tacaataatgtagaccacaagccaggccaggctagcatataatatacaccaagggaacaaatatgtgtaggctctgatataaccttgtcgttcattttttgttccattgacag

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|77581025|gb|DV219440.1|DV219440
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|30303522|gb|CB980316.1|CB980316
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|110384527|gb|EC948970.1|EC948970
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|77585681|gb|DV221932.1|DV221932
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|30329044|gb|CD012306.1|CD012306
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|30133940|gb|CB919279.1|CB919279
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|110386543|gb|EC951144.1|EC951144
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|71868070|gb|DT017125.1|DT017125
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|110368925|gb|EC933063.1|EC933063
EST:     GTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: GTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|56408576|gb|CX016828.1|CX016828
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|77579507|gb|DV218595.1|DV218595
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|56408380|gb|CX016632.1|CX016632
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
EST: gi|27582331|gb|CB005026.1|CB005026
EST:     ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAG                         TCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG
genomic: ATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattattt ... tttgtttcagTCCCCTGAAGATTGTGCAATTTCCATTGCCAACATCATCCGACACCATGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGGGGCCCATTACTTTGAAGAGGGAAATGTGCAGTTAGATGCAAAACATGAATGCAAGGATTCAACAATATTTCAGgttattatttatatatgtataaatattctattcctattttaaagggaagaaaccaagtggtgtcacacctttttcaaaacatcaaactactacatatgga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaaca