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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag

Basic information

species Vitis vinifera
transcript Vv13s0067g00220.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g44630.3 (Oryza sativa), 5'ss of exon 2
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
 ||| |||||||||||||||| || || || ||||||||||||||  ||||||| || || ||||||||||||||||||||||| || ||| | ||||| || ||| |||  |    |||||||  ||   |  |  |  | |       |    ||  || ||| ||    ||| |  | | ||  ||  |||    |   |                        
CCACCTGGCCACCATCCCCATCACCGGTACTGGCATCAACCCAGCCAGGAGCCTTGGCGCTGCCATCATCTACAACAAGGACCATGCCTGGAATGACCATgtgagcaaccttt----cttctctttttacctactcgccgttctcagcaattggttcctcttacattatcagatattagtca-gcacatcattgataatcgatac----------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os04g47220.1 (Oryza sativa), 5'ss of exon 2
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
 ||| |||||||||||||||| || || |||||||||||||||||  ||||||| || || |||||||||||||||| || ||| || ||||| ||||| || ||       |       ||  |    |    || ||  | | || | | |||  ||   | |   ||  ||| |    ||   |||   |   | |   | | |                    
TCACCTGGCCACCATCCCCATCACCGGCACCGGCATCAACCCAGCGAGGAGCCTTGGCGCTGCCATCATCTACAACAGGGGCCATGCCTGGGATGACCATgtgagtt-----taaattcactgaaaccaacccctttctccctccttacatgtaga-aatatatatatatatata-tatatatatatatatatatatatatatatat--------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g57720.1 (Oryza sativa), 5'ss of exon 1
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaat-aatcaata-gtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
 ||| | |||||||||||||| || || |||||||||||||| || || ||||| || || |||||| |||| |||   | |||||||||| ||||||||||| || ||| |      ||   | |||  |    | |||  |   | | || |  | |   | ||  ||||   | |||  |     |||  ||   |                              
CCACCTCGCCACCATCCCCATCACCGGCACCGGCATCAACCCCGCCCGCAGCCTCGGCGCCGCCATCGTCTATAACCGCGCCCACGCATGGCACGACCACgtatgcaaccaaccattatttaatgctttctcaactacttagctactccatccatccgataaaaaaccaatcggaacgtgacacattctattattatgta-----------------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 3
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagcc--accgat-tgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
 ||| | |||||||||||||| ||||| || ||||||||||||||| ||||||| || || |||||||||||||||| ||| ||||| ||| ||||||| || ||    ||   | | |  | | ||    |    ||||| || |||    ||     | |||| || |    ||| ||    || |  ||    | | |                             
CCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCGCTGCCATCATCTACAACAGGGATCACGCCTGGAACGACCATgtgagtggaactactctcgattcccctctaaccaactttccatttcctacagtttggtaccactcgcagtg--taat-gtctccatccaaatatcagacatcc---------------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G081843_T01 (Zea mays), 5'ss of exon 1
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
|||| |||| ||||||||||| || || |||||||||||||| || || ||||| || || |||||| ||||||||| |  |||||||||| |||||||||| ||   |    ||| | | || | |  ||    | ||    ||      | |||  |     | | | |     |   ||   ||||  ||||                                
GCACCTGGCGACCATCCCCATCACCGGCACCGGCATCAACCCCGCGCGCAGCCTCGGCGCCGCCATCGTCTACAACAGGTCCCACGCATGGAACGACCACgtgagtttcattctggccatgtcga-tcgatcgaattctcatgctgcggcgcgagttcatg---actgaccttggatttgaactattattattgcag------------------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G392975_T02 (Zea mays), 5'ss of exon 3
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataat-caatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
 ||| | |||||||||||||| || || |||||||||||||| ||| ||||||| || || |||||||||||||||  ||| || || |||  |||||| || ||         |  || ||||     |||  |      ||   ||       ||   |  ||| | |    ||   ||    ||    ||    | |   |   |   | | |            
CCACCTTGCCACCATCCCCATCACCGGCACCGGCATCAACCCGGCTAGGAGCCTTGGCGCCGCCATCATCTACAACCGGGATCATGCGTGGAGCGACCATgtgagtgg------gaactgctct---cgattcctctggcaccaaatt-------tcggtttccaacagtgtggtaccactcgcactcgcagtgtagtgtgtctccatccaaatac------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G392975_T03 (Zea mays), 5'ss of exon 3
-------------------------------GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagc---caccgat-tgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
                                ||| | |||||||||||||| || || |||||||||||||| ||| ||||||| || || |||||||||||||||  ||| || || |||  |||||| || ||     || | | | |  | ||||    |    ||||  || ||     |      | |||| ||                                                              
CACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATCACCGGCACCGGCATCAACCCGGCTAGGAGCCTTGGCGCCGCCATCATctacaaccgggatcatgcgtggagcgaccatgtgagtgggaactgctctcgattcctctggcaccaaatttcggtttccaacagtgtggtaccactcgca--------------------------------------------------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G174807_T01 (Zea mays), 5'ss of exon 3
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctac-ttcattttttcctttcccttttcttcta-gtcaactcacaataatcaatagtgctaatgcttatggttgccttttcttttcttttactgcctcatgctacag
 ||| ||||||||||||| || || || |||||||||||||| || |||||||| || || ||| | || |||||| || |||| || ||||  |||||||| ||      |      |  ||||| ||| | || |    |   ||  || ||    |||   | || |||   |      | || | |  || |  |                              
CCACCTGGCCACCATCCCTATCACCGGCACCGGCATCAACCCCGCGCGGAGCCTTGGCGCCGCCGTAATTTACAACCAGCACCATGCGTGGGCTGACCACgtgagtggaaaacaactttcttctaccttcgtgttgttaactagtttcactgctttagcaaaaaaaaaaaattgtttagctcactgttaacagtagtatg-----------------------------

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S102_107V6.1 (Physcomitrella patens), 5'ss of exon 3
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACA---AGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgctaatgcttatggttgcctttt-----cttttcttttactgcctcatgctacag----------------------------------------
    ||||||||||| ||||| || ||||| ||||| ||||| || || || ||||| ||||||| |||||||||||   || || | || |||| ||| ||||| ||   |  |||    | | | ||| |   |     ||     ||     |||   ||| |   |  ||   ||   || |   ||||| | |  | |     |   |  ||  | | | ||   |  ||                                        
---TTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCGCGGCCACCATCTACAACACGCAGCACAATGCCTGGGCCGATCACgtgagttgc--attctcttccaccactcctgctgaaaattcaaggttaaggttag--gactta---tcgtctggagatttattttctatgggttcggtctagaaacgaatggttatcaggcacaatatgaaggagctgtaacctctctgaaatgttgattgtgctgctgcag

upper sequence: Vv13s0067g00220.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S305_12V6.1 (Physcomitrella patens), 5'ss of exon 3
GCACTTGGCCACCATCCCCATAACTGGAACCGGCATCAACCCAGCTCGGAGCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccaccgattgggcttctctacttcattttttcctttcccttttcttctagtcaactcacaataatcaatagtgc-taatgcttatggttgccttttcttttctt-ttactgcctcatgctacag----------------------------------------------------
||||||||||||||| ||||| ||||| ||  |||||||||||||||| || || || || ||  | || |  ||||  || || || ||| |||| || ||||||| ||   |    |   | |  |          | ||||  | |  ||| |   ||  |  | | |   | |||   | |   |  ||| | |    |||| |   | ||| ||     | ||                                                     
GCACTTGGCCACCATTCCCATCACTGGTACAAGCATCAACCCAGCTCGCAGTCTCGGCGCTGCAGTGATTTGGAACAGAGATCAGGCTTGGAACGATCATgtaagcctccacctcctttgtcccatctatccaaactatgtcccaatgcacctaatt--cttgctttcaactgaaatgcaccacgaacacagtttcttcgagttttgtcgctgctgtcttgctgttcaacagccgaagcaaattcattttttattgttcttctggttttttgttgtgacag

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|351019993|gb|FQ439810.1|FQ439810
EST:     CTGGGTGCGGCCATCATCTACAAACAAAGGACCACGCATGGGACGACCAC                         TGGATCTTCTGGGTGGGACCATTTCATTGGGGCCGCACTACCAAGCTT-AT
genomic: CTGGGTGCGGCCATCATCTACAA-CAA-GGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATT-CATTGGGGCCGCACTAGCA-GCTTTAT
EST: gi|110689996|gb|EE066710.1|EE066710
EST:     GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCAC                         TGGATCTTCTGGGTGGGACCATT
genomic: GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATT
EST: gi|33409723|gb|CF215350.1|CF215350
EST:     GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCAC                         TGGATCTTCTGGGTGGGACCATTCA
genomic: GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATTCA
EST: gi|161720336|gb|FC071189.1|FC071189
EST:     GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCCC                         TGGATCTTCTGGGTGGGACCATTC
genomic: GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATTC
EST: gi|33409719|gb|CF215346.1|CF215346
EST:     GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCAC                         TGGATCTTCTGGGTGGGACCATTCATTGGGGCCGCACTAGCAGCTTTATAC
genomic: GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATTCATTGGGGCCGCACTAGCAGCTTTATAC
EST: gi|161713874|gb|FC062564.1|FC062564
EST:     GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCAC                         TGGATCTTCTGGGTGGGACCATTCATTG
genomic: GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATTCATTG
EST: gi|33409074|gb|CF214701.1|CF214701
EST:     GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCAC                         TGGATCTTCTGGGTGGGACCATTCATTGGGGGCGCACTAGCAGCTTTATAC
genomic: GCCTGGGTGCGGCCATCATCTACAACAAGGACCACGCATGGGACGACCACgtaagccacc ... catgctacagTGGATCTTCTGGGTGGGACCATTCATTGGGGCCGCACTAGCAGCTTTATAC