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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag

Basic information

species Vitis vinifera
transcript Vv15s0046g02410.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os04g47220.1 (Oryza sativa), 5'ss of exon 2
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttct--catctcgtcatctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
||| ||||| ||||||||||||||||| |||||||||||||| || ||||| || || || ||||||||||||||||||||  ||||||||||||||   || |||  |||  |  ||  |    |   |    |  || ||  ||| | |  || ||| | |  || | |  | |||  || |   | |   | |    ||   
TCACCTGGCCACCATCCCCATCACCGGCACCGGCATCAACCCAGCGAGGAGCCTTGGCGCTGCCATCATCTACAACAGGGGCCATGCCTGGGATGACCATgtgagtttaaat-tcactgaaaccaacccctttctccctccttacatgtagaaatatatatatatatat-atatatatatatatatatatatatatatatat---

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g44630.3 (Oryza sativa), 5'ss of exon 2
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgacttgt-attgatttcattcttgttgttcccatcag
 || ||||| ||||||||||||||||| || ||||||||||| || ||||| || || || |||||||||||||||| ||   |||||||| |||||   || ||  |      | |||| |      || |      |||||| |   |  |   |||   | | | |  | | | | |   |||  ||| |  ||    |  
CCACCTGGCCACCATCCCCATCACCGGTACTGGCATCAACCCAGCCAGGAGCCTTGGCGCTGCCATCATCTACAACAAGGACCATGCCTGGAATGACCATgtgagcaacctttcttctctttttacctactcgccg--ttctcagcaattggttcctcttacattatcagatattagtcagcacatcattgataatcgatac--

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g57720.1 (Oryza sativa), 5'ss of exon 1
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtga--aaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
 || || || ||||||||||||||||| |||||||||||||| ||  | || ||||| ||||||||| |||| ||| | |   | || ||| | |||   ||| |  |  || ||||  |  ||  |    | |||   |||  |  |||  |||| ||| |  ||    ||   |    |  | |  | |  | ||   ||   
CCACCTCGCCACCATCCCCATCACCGGCACCGGCATCAACCCCGCCCGCAGCCTCGGCGCCGCCATCGTCTATAACCGCGCCCACGCATGGCACGACCACgtatgcaaccaaccattatttaat--gctttctcaactacttagctactc--catccatccgataaaa-aaccaatcggaacgtgacacattctattattatgta

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G392975_T02 (Zea mays), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtg-aatctgacttgtattgatttcattcttgt-tgttcccatcag-----
 || || || ||||||||||||||||| |||||||||||||| |||||||| || || |||||||||||||||||| |||   |||| |||   |||   || ||||  |||    ||| ||        ||  | ||  |  || |||   || | | |||   |   ||| | | |     || | | || |||  |||||       
CCACCTTGCCACCATCCCCATCACCGGCACCGGCATCAACCCGGCTAGGAGCCTTGGCGCCGCCATCATCTACAACCGGGATCATGCGTGGAGCGACCATgtgagtgggaactgctctcgat-------tcctctggcaccaaatttcggtttccaacagtgtggtaccactcgcactcg---cagtgtagtgtgtctccatccaaatac

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G392975_T03 (Zea mays), 5'ss of exon 3
-------------------------------TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtg-aatctgacttgtattgatttcattcttgttgttcccatcag
                                || || || ||||||||||||||||| |||||||||||||| |||||||| || || |||||||||||||||||| |||   |||| |||   |||   || ||||  |||    ||| ||        ||  | ||  |  || |||   || | | |||   |   ||| | |                            
CACTGCCAATTGGGTTCGCGGTGTTCCTGGTCCACCTTGCCACCATCCCCATCACCGGCACCGGCATCAACCCGGCTAGGAGCCTTGGCGCCGCCATCATctacaaccgggatcatgcgtggagcgaccatgtgagtgggaactgctctcgat-------tcctctggcaccaaatttcggtttccaacagtgtggtaccactcgca----------------------------

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G081843_T01 (Zea mays), 5'ss of exon 1
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgac-ttgtattgatttcattcttgttgttcccatcag
 || ||||| ||||||||||||||||| |||||||||||||| ||  | || ||||| ||||||||| |||||||||||    | || ||| | |||   || |||   |   | ||  | |     || | |||    ||      || |     |   |||  ||||| ||| |||      ||| || |||          
GCACCTGGCGACCATCCCCATCACCGGCACCGGCATCAACCCCGCGCGCAGCCTCGGCGCCGCCATCGTCTACAACAGGTCCCACGCATGGAACGACCACgtgagtttcattctggccatgtcgatcgatcgaat--tctcatgctgcggcgcgagttcatga--ctgaccttggatttgaactattattattgcag-------

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AC209208.3_FGT002 (Zea mays), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgt-catctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
 || || || ||||||||||| || || || ||||||||||| |||||||| || || || |||||||||||||||||||   | |||||| | |||   || |||| ||  | | ||| ||       |  |  | |||  ||| || | ||  |   |   | ||  | | ||| ||  | ||| |   |      ||||  
CCACCTTGCCACCATCCCCATTACTGGCACTGGCATCAACCCAGCTAGGAGCCTTGGCGCTGCCATCATCTACAACAGGGATCACGCCTGGAACGACCATgtgagtggaactact-ctcgattcccct-ctaaccaactttccatttcctacagtttggtaccactcgcagt-gtaatgtctccatccaaatatcagacatcc-

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G174807_T01 (Zea mays), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagctt-ctcatctcgtca-tctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
 || ||||| |||||||| |||||||| |||||||||||||| ||  |||| || || |||||| | || ||||||  |    |||| |||| ||||   || |||| ||| |   || | |   |    |   | | |  ||  | ||     | || |    ||    | |||| | |   ||| | ||     |   ||   
CCACCTGGCCACCATCCCTATCACCGGCACCGGCATCAACCCCGCGCGGAGCCTTGGCGCCGCCGTAATTTACAACCAGCACCATGCGTGGGCTGACCACgtgagtggaaa-acaactttcttctaccttcgtgttgttaactagtttcactgctttagcaaaaaaaaaaaattgtttag--ctcactgttaacagtagtatg--

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA05G37730.1 (Glycine max), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaata-gcttctcatctcgtcatctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
 ||  |||| ||||| |||||||| ||||| ||||| ||||| |||||||||||||| || ||||||||||||||||| |   |||| |||||||||   ||| ||       || || | |||||      | |  | | |  || |   |||     |  |||  | |  |  || |   | ||  |  || ||   || | 
CCACTTGGCTACCATTCCCATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTCGGAGCTGCCATCATCTACAACAGAGACCATGCATGGGATGACCAAgtatgtttcttacttcctttttaagactttaaattttgttacatatattcccattagcataggaaaataaggtaaatag---ttatattgatttttataataa-

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA08G01860.1 (Glycine max), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
 ||  |||| ||||| |||||||| ||||| ||||| ||||| |||||||||||||| || ||||||||||||||||| |   |||| |||||||||   ||| ||          ||  |      |   || ||  ||| |||      |   |    || |  |   ||   |  |||| ||| |  || | |  | |  
CCACTTGGCTACCATTCCCATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTCGGAGCTGCCATCATCTACAACAGAGACCATGCATGGGATGACCAAgtatgtttttttgagacttgaatttttgtttca-tatattcccattagcataggaaataatgtaaatagttttattgaattttattataattat-cttaccg-

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA11G02530.1 (Glycine max), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaaacattgctctataagaagacccaatagcttctcatctcgtcatctatctgtgaatctgacttgtattgatttcattcttgttgttcccatcag
 ||  |||||||||| || ||||| ||||| ||||| ||||| ||||||||||| || || || || || |||||||| |   |||| |||||||||     | ||  | ||||  |  |  |      |  |   || |||    |   |||  |   |||| | |    | ||    ||| ||| |  ||||  |   |||
CCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTGCTGCTATAATATACAACAGAGACCATGCTTGGGATGAC----CATgtatatacatgtcctttca------cttatgtgcctctttgttttgcatgaaa--gtgacttta---tttaactgtttaattttaattgtggcttacag

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S1_535V6.2 (Physcomitrella patens), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGGAAT---GCCTGGGATGACATGgtaagtgaaaacatt-gctctataagaagacccaatagcttctcatctcg--tcatctatc-tgtgaatctgacttgtattgatttcattcttgttgttc-ccatcag-------------------------------------------------
     |||| ||||| |||||||||||||| ||||||||||| ||  | ||||| || || ||  |  |||  ||||    |||    || ||||  ||    || |||  || | || |||     |    | || ||     |  |   |   |     |||  || |     |    |||  || |   |||   | ||     ||||                                                 
---CTTGGCCACCATTCCCATCACCGGAACTGGCATCAACCCCGCCCGTAGTCTAGGTGCTGCTGTTGTCTTTAACAAACAGAACAACGCTTGGGCCGATCACgtgagttcaagcttttgcttccccaccttatcctatgctcgccgaatgcaaattgcaaatcacgtcagggatatgcttatgaatattgctctcagtattagttgtcaggctcatgtcggacgggctttgatctctgttttttttggtgcttttgcag

upper sequence: Vv15s0046g02410.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S102_107V6.1 (Physcomitrella patens), 5'ss of exon 3
TCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGGCCGCCATCATCTACAACAGGGGG---AATGCCTGGGATGACATGgtaagtgaaaa-------cattgctctataagaagacccaatagcttctcatctcgtcatct-atctgtgaatctgacttgtattgatttcattcttgtt---gttcccatcag-----------------------------------------------------
   | |||| ||||| |||||||||||||| ||||| ||||||||  | ||||| || || |||| ||||||||||| |  |   ||||||||||  ||    || |||   |        ||   |||     ||| |  ||  || ||    |   | | | |  ||||   || |   || ||| | ||   |           |    |||||                                                     
---TTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCGCGGCCACCATCTACAACACGCAGCACAATGCCTGGGCCGATCACgtgagttgcattctcttccaccactcctgctgaaaattca--aggttaaggttaggacttatcgtctggagatttattttctatgggttcggtctagaaacgaatggttatcaggcacaatatgaaggagctgtaacctctctgaaatgttgattgtgctgctgcag

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|351039371|gb|FQ461238.1|FQ461238
EST:     GTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATG                         TGGATTTTCTGGGTTGGACCCTTCATTGAAGCTACTCTG
genomic: GTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaa ... ttcccatcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTACTCTG
EST: gi|110699569|gb|EE076680.1|EE076680
EST:     TCTCGGGGCCCGC-ATCATCTACAACAGGGGGAATGCCTGGGATGACATG                         TGGATTTTCTGGGGTGGNACCNT-CATTGGAGCTACTCTGGCTACCNNTGT
genomic: TCTCGGGGCC-GCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaa ... ttcccatcagTGGATTTTCTGGGTTGG-ACCCTTCATTGGAGCTACTCTGGCTACCT-TGT
EST: gi|351012484|gb|FQ427085.1|FQ427085
EST:     GTCTCGGGGCCGCCATCATCTACNACAGGGGGAATGCCTGGGATGACATG                         TGGATTTTCTGGGGTGGACCCTTCATTGGAGCTACTCTGGCTACCTTGTAC
genomic: GTCTCGGGGCCGCCATCATCTACAACAGGGGGAATGCCTGGGATGACATGgtaagtgaaa ... ttcccatcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTACTCTGGCTACCTTGTAC