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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag

Basic information

species Vitis vinifera
transcript Vv05s0020g01960.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 5'ss of exon 10
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
|| |  || | |||| |||||||||||||||||| |  || || || ||||| || ||||| |||||||||||||| ||||| || ||  | ||||||||||||||  | | ||    ||    ||| ||       |  | | |   |||  ||     ||||| || ||  |  | ||   || ||||| ||       | |   | |  || |||
TGCTAGATCTGAGTGGCATTCTCACTGTGTTCTTCTCTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGCTCTAGGATTACTACCAAgtatgt--actgtctgataatc--agttttactggcaacccttgtggtttcttttagatgaaaatatttatgta--tatggc-ttcctgatatt-----cttcattcatt--ttacag

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G063492_T01 (Zea mays), 5'ss of exon 10
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
||||  |  | ||||  ||||| ||||| ||||| || || || || ||||| || ||||| |||||||||||||| |||||||| || || || |||||||||||    | | | |||       | |  |     | | ||  |  || | | || | |  ||||  | |||         |||||||| ||     |||| |||  |   |||||
TGTTGGACCTGAGTGGAATTCTTACTGTCTTCTTCTGTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGTTCTAGGGTTACCACCAAgtatgtc---ttttctggattcagtttttctagcaaaaattatggttcttacttcttac-attatgtatactaa---------ttgctgatttt----ctctttccatgt---tgcag

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G311165_T01 (Zea mays), 5'ss of exon 9
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
|| || |||| |||| ||||||||||||||| || || || || || ||||| ||||| || ||||| ||||| || |||||||| || || || |||||||| ||   ||       |  |   |||| || |||   |  |  |||| | ||| |     |||| | ||   | |||  | |||      | ||||                    
TGCTCGATTTGAGTGGCATTCTCACTGTGTTTTTCTGTGGTATCGTAATGTCACACTATACTTGGCAAAATGTAACAGAAAGTTCGAGGGTCACAACCAAgtaagtagcttcat----accttctgtatggacatttgcttttgatcatgc-attctttggtaatgcttatgctaatgtactattggatggatcacag--------------------

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA17G02560.1 (Glycine max), 5'ss of exon 8
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaa-ttatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
| || | ||||||||||||||| ||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||| || |||||||||||||| |||||||| || || || | ||  |  |  |  |  || ||  |      | |     ||  | | |      |||||||  |    || ||| |                             
TATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCAAgtacgtgaaattcttcaacacattcatga--gacatgtacaagattgctactaatgatactacttaactgattaatttccc-tgctgcag-----------------------------

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA07G38160.1 (Glycine max), 5'ss of exon 9
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaa-ttatccaggaagtgaagtattgaaattcatt-catcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
| || | ||||||||||||||| ||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||| || |||||||||||||| |||||||| || || || | ||  |  |  | ||   |  | ||    | || |     ||  | |  || || |  || || |    ||  || |                             
TATTTTCTTTAAGTGCCATTCTGACTGTTTTCTTCTGCGGCATTGTTATGTCTCACTACACGTGGCATAATGTGACAGAGAGTTCAAGAGTGACAACCAAgtacgtgaaattcttcaacacattcattaggcatgtacaagatagctactaatgatactacttaactgat--tttaatttccctgccgcag-----------------------------

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 5'ss of exon 10
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
| ||| | || ||  | ||  | ||||||||||| ||||||||||| ||||||||||| |||||||| ||||| || || |  || |  || ||||| ||||| |||  || | |        |    | |||| | | ||  ||  | |   || |||   |   |||| ||||||||     |  |  ||    ||                    
TATTCCACTTGAGCTCTATCTTGACTGTGTTCTTCTGCGGGATTGTTATGTCTCACTATACATGGCACAATGTTACAGATAAATCCAAGGTCACTACAAAgtaagtttctttttcttctcccaataattagaaaataactctact--aatttgttgtgcttga---ttgactaaactgtatacgttttcttggcgtag--------------------

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: PP1S113_117V6.1 (Physcomitrella patens), 5'ss of exon 8
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgcca--aaatgttgattaaactg-----tgatgttgctgatgttacagttcttac-caaatgtttgcag-----------------------------------
| ||||| || ||||  || ||| | ||||||||||| || ||||| |||||||| ||||| ||||||||||| || |||| |||  ||   || |||| ||| ||   |  | || |      ||  | ||  |||  |  |    |    ||     ||  |||| ||  | | ||||     | || |    || |||  |||| | |  |  ||| |||                                      
TTTTCTACTTGAGTGGAATACTCTCAGTGTTCTTTTGTGGCATTGTAATGTCTCATTACACTTGGCATAATGTCACGGAAAATTCTCGAACCACAACCAGgtacgt---tccttcatgcctcttagcttcgatgttctatactagcgaacgaatggcaacatcaaatattcttgagactgatgcgtaatttcttggaggttggagttatgatactgatgcttgtcatcaacgtgacattaatgcactttggtgattcacag

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: PP1S169_48V6.1 (Physcomitrella patens), 5'ss of exon 9
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgtt--------------aattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttg-ctgatgttacagttct--taccaaatgtttgcag----------------------------
| ||||| || ||||  |||||| | |||||||||||||| ||||| |||||||| ||||| |||||||| || || || | |||  || | || | |||||| |||              | ||     ||  ||     |||   |||  || || |  | |   ||| |   | |||| || |   ||  ||  | | |  ||  | || | ||  ||| ||  ||                                  
TTTTCTACTTGAGTGGAATTCTCTCAGTGTTCTTTTGCGGCATTGTAATGTCTCATTACACTTGGCATAACGTCACGGAGAATTCTCGAATCACAAGCAAgtacgttttataatgtacctcagtttctatgggtgttgcaaattagtatttgtttatgtcgaatatttttggaacagatgtagaatttcctcggaactagacccattattcaatgctgatactaagcgtcaatgttatgttgatacgttttggttaattgcag

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: PP1S207_23V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgtta--attatccaggaagtgaagtattgaaattcattcatcttcattcc-attttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
| ||||| || ||||  ||||| ||||| |||||||| || ||||| ||||| ||||| || ||||||||||| |||||||| ||  || | || |||| |||    |  ||       |||  | | | |      |||||||     |  || |  |||   ||||  |  | | |   | || |   |  | |||                       
TTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCAGgtaaacaaccatctcttctgaatcggaatgtcctg--tcattcaatggaacacctaagttgtttaaattatagtcatatattaatatcctttgtcttaacac-------------------

upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: PP1S31_203V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTTCTATTTAAGTGCCATTCTCACTGTGTTCTTTTGCGGGATTGTCATGTCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaattatccaggaagtgaagtattgaaattcattcatcttcattccattttgccaaaatgttgattaaactgtgatgttgctgatgttacagttcttaccaaatgtttgcag
| |||||  | ||||  ||||| || || |||||||| || ||||| ||||| |||||||| |||||||| || |||||||| ||| |||| ||||||||||| |    |  ||    |  ||   | |     |||||  | |   |||    | ||   ||    |     |  |   | |  ||| | | |  |||   |               
TTTTCTACCTGAGTGGAATTCTTACCGTCTTCTTTTGTGGCATTGTAATGTCACACTACACCTGGCATAACGTCACTGAAAGCTCACGAGTAACTACCAAgtaggcatctcttctttcagttgggatgtcctt-ttcatctaacagaatttttatctgttgaa----taggccacgtacaa-gcagctcaagatttagtctatttg------------

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|110696446|gb|EE072580.1|EE072580
EST:     TCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAA                         GCATGCTTTTGCGACATTGTCATTTGTTGCTGAAATTTTTATCTTTCTATA
genomic: TCTCACTACACATGGCATAATGTGACTGAAAGTTCAAGAGTGACTACCAAgtatgttaat ... atgtttgcagGCATGCTTTTGCGACATTGTCATTTGTTGCTGAAATTTTTATCTTTCTATA