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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtttttacaattcctaaatttcttttaccatagatgtcaatatagtgtttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag

Basic information

species Vitis vinifera
transcript Vv01s0026g01590.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os01g09120.2 (Oryza sativa), 5'ss of exon 2
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttttt---acaattcctaaat-ttcttttaccatagatgtcaatatagtgtttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag----------
|   | |||||||||  ||||||||    |    ||| ||       ||  || |||| |||| | | ||||||||||||||||||||||||||||||||||||||| ||   | |||   |   | || || |    | || ||  || | |||||  ||     |  |||  ||    |    | |     |           ||  | ||| |           
GTCTAGTGGTCTGCGGGAAGAGATGTGATTCTGTTGGCATCCCAGCACTCAGTTCTTCATTAAATCTTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttatttgcataatctgtttgtattgttgttgttttgacgtatatctcgtgttcaaaataaatatatgcatttcattccctctttattaattgagagcagttttattttgaaatgattcacag

upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
-------------------------GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtt-tttacaattccta-----aatttcttttaccatagatgtcaatatagtgt----ttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag---------
                         |   | ||||| ||   ||||||||   ||    ||| ||       ||  || | || ||||   | ||||| |||||||||||||| |||||||||||||||||| ||| ||  |  |       ||||  ||  | |    | ||    || | |    ||||| |   |  |||||  |   | |||| | |  ||  ||  |  || |  | ||| |          
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtc--caattcatgcgtgcttcattattaaactgatcattttgaactgatcacag

upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G176506_T04 (Zea mays), 5'ss of exon 2
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtt-tttacaattcctaa-----atttcttttaccatagatgtcaatatagtgtt----tgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag---------
|   | ||||| ||   ||||||||   ||    ||| ||       ||  || | || ||||   | ||||| |||||||||||||| |||||||||||||||||| ||| ||  |  |       ||||  ||  | |    | ||    || | ||    |||| |   |  |||||  |   | |||| | |  ||  ||  |  || |  | ||| |          
GTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGGTAGAATCAAACAGAGCTTTGTATTgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtc--caattcatgcgtgcttcattattaaactgatcattttgaactgatcacag

upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA01G04920.1 (Glycine max), 5'ss of exon 2
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtttttacaatt-cctaaatttcttttaccatagatgtcaa--tatagtgtttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag
||| |||||| ||  |||||||||||| | |  |||   | || ||  |  |  | ||||| ||||| ||||||||||||||||||||||||||||||||||||||| ||  || |  |||  ||| || |  | |       |   |||  | |  | |||   ||||| | ||     ||||  |             || ||| | |||||||
GCAGATTGGTGTGTCAAAAGAGATGCAGCATTCCTGATGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttgttggaaatgtctagttttgttattacttttccacaagcttatgctttccgcagacccttaatttgttgcttgtatgattt------------tgagtttc-cttgcag

upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA16G10260.1 (Glycine max), 5'ss of exon 4
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtt-tttacaattcctaaatttcttttaccatagatgtcaatatagtgtttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag
  | |||||| ||   |||||| | || | |  |||   | || ||  |  |  | ||||| ||||| ||||||||||||||||||||||||||||||||||||||| ||   |||  |||  ||| || |  | |    |  |   |  || ||     | |    |   || |   | || ||         | |   ||| |         
-GAGATTGGTGTGTAGAAAGAGGTCCAGCATTCCTGACGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttattggaaatgtctagttttgttattacttgaccgcaagctttatgcttttttgtagacccttaatttgttgtttgtatgattttgagtttccatgtag---------

upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA02G02600.5 (Glycine max), 5'ss of exon 2
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtttttacaa-ttcctaaatttcttttaccatagatgtcaatatagtg----tttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag
| | |||||| ||   |||||| | || | |  |||   | || ||  |  |  | ||||| ||||| ||||||||||||||||||||||||||||||||||||||| ||  || |  |||  ||| || |  | |    |  |   |  ||    |||| |||   ||||| | ||     |||| ||     |   |  |||              
GGAGATTGGTGTGTAGAAAGAGGTCCAGCATTCCTGACGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttattggaaatgtctagttttgttattactttaccgcaagctttatgcttttttgcagacccttaatttgttgtttgtatg-attttg-agtttccatgcag-----------

upper sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtttttacaattcctaaatttctttta---ccatagatgtcaatatagtgtttgaagatggttaatgtcttcgcc-ttatgcatcccacaacatatatgtgttgctcttgcag
| | ||| ||||||| |||| | | |  |||    ||| | |     ||  |  | || ||| |||| ||||| ||||||||||||||||| || |||||||||||   |  | ||  | | | | || |      | ||    | | |     |||  | || |  | |||  |||    | ||||                              
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacat-tatttttttattgtgttatggagttacagtctgctacaatagattttgatattgacattgttctcgtaactttgcag-----------------------------

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|161720305|gb|FC071158.1|FC071158
EST:     GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATT                         GACTGATCCCCATTTACCTGAGATGCCAATCGCTTATGCAAGTGATGCCTT
genomic: GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttttt ... gctcttgcagGACTGATCCCCATTTACCTGAGATGCCAATCGTTTATGCAAGTGATGCCTT
EST: gi|110427355|gb|EC993791.1|EC993791
EST:     GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATT                         GACTGATCCCCATTTACCTGAGATGCCAATCGTTTATGCAAGTGATGCCTT
genomic: GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttttt ... gctcttgcagGACTGATCCCCATTTACCTGAGATGCCAATCGTTTATGCAAGTGATGCCTT
EST: gi|110379815|gb|EC945035.1|EC945035
EST:     GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATT                         GACTGATCCCCATTTACCTGAGATGCCAATCGCTTATGCAAGTGATGCCTT
genomic: GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttttt ... gctcttgcagGACTGATCCCCATTTACCTGAGATGCCAATCGTTTATGCAAGTGATGCCTT
EST: gi|71859761|gb|DT008816.1|DT008816
EST:     GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATT                         GACTGATCCCCATTTACCTGAGATGCCAATCGCTTATGCAAGTGATGCCTT
genomic: GGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttttt ... gctcttgcagGACTGATCCCCATTTACCTGAGATGCCAATCGTTTATGCAAGTGATGCCTT