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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttattaatattcgtccacaaaccttgtctttggtgattgttatcttcaatccgacatatattatttattccttcggagctaatccactggtcctg...

Basic information

species Vitis vinifera
transcript Vv17s0000g01720.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os07g46720.2 (Oryza sativa), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttattaatattcgtccacaaaccttgtctttggtgattgttatcttcaatccgacatatattatttattccttcggagctaatc-cactggtcctg-
| ||||||||||||||| | || ||||| ||||| ||||| || || ||  |  | ||||| |||||||| |||||||||||||||||||||||||| |||||||||   |   || |   |     | |||   | ||  | || || || | |  ||  | ||    || |  ||  | |  ||||| |     |  || 
TTAAGTTCAATGTGAACCGTGTGGATAACATGGTAATTCAAGCGATTTTTTTGTTGGATACACTTGATAAGGATATCAATTCCTTCTCCATGAGAGTGAGgtttgttgccatcttttgcttaatttacatgttcattgtt-tagtgatttttatttagatttttagatgttgtgactg-gaatttaatcacctcaattatgt

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g22880.1 (Oryza sativa), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttattaatattcgtccacaaaccttgtctttggtgattgttatcttcaatccgacatatattatttattccttcggagctaatccactggtcctg--
||||||||||||||||| | || || || ||||| |||||||| ||||||||  | ||||| ||||| || || |||||||| |||||||||||||| |||| || | |     | |||         |  | |  | ||  | || | ||      |||||  || |||  |   ||        |  || ||||  |   
TGAAGTTCAATGTGAACCGCGTTGACAACATGGTGATTCAGGCTATCTTCCTGTTGGATACACTTGACAAGGACATCAATTCTTTCTCCATGAGAGTGAGgtctggtttcttcttccgtgttttgggttaatat--gatgcatttttttttgttgtggacatgcatgattgttctattgattcaccacacaatggtgtttgg

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G144995_T01 (Zea mays), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttattaatattcgtcca--caaaccttgtc--tttggtgattgttatcttcaatccgacatatattatttattccttcggagctaatccactggtcctg--------------------------------
||||||||||||||||  | || || || ||||| || ||||| ||||| ||  | ||||| ||||| || || |||||||||||||||||||||||||||| ||||  |  |  || |  |        |||||  |||  | |  |  ||| |      |     |      |||   |  |    ||  ||  ||||                                    
TGAAGTTCAATGTGAATCGTGTTGACAACATGGTGATCCAGGCAATCTTTCTATTGGATACGCTTGACAAGGACATCAATTCCTTCTCCATGAGAGTCAGgtctgttgcttgttctcctataactgtttattgtcaattttctaagaggcatcataggcagggagctttgaggatatgaatgtgccaatatgcccttggtatgattatttactgttttctcaataaaacactgcag

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G110233_T01 (Zea mays), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgt----ttgttattaatattcgtccacaaac-cttgtctttggtgattgttatcttcaatccgacata--tattatttattccttcggagctaatccactggtcctg-----------------------------------------------------------
||||||||||||||||  | || ||||| ||||| || || || || || || || ||||| ||||| || || ||||||||||||||||||||||||||||    |  || || || |||    | ||    || |  ||      |  ||     |||  | | ||  |||      |    || ||   ||  | ||| |  |                                                            
TGAAGTTCAATGTGAATCGTGTTGATAACATGGTGATCCAAGCAATATTTCTGCTGGATACACTTGACAAGGACATCAATTCCTTCTCCATGAGAGTCAGgtactgtccttgttcatgttctcatataattgtttatggttaacttcttataagcgtaataggccgtatttatagacagtctgctctgatagaaaactctgataatatgaatatgcaaatattccttattatgattatttattgctttctcaataaaacattgcag

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G11560.1 (Glycine max), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgt---ttgttattaat-----attcgtccacaaacct-tgtctttggtg------attgttatcttcaatccgacatatattatttattccttcggagct-aatccactggtcctg---------------
|||| |||||||| ||| | || || || ||||||||||| || || |||||||| ||||| |||||||| ||||| ||||| |||||||||||||||||||   ||||  | ||      || |    | ||  || |   |||  |       || ||| |||||  |   |   | |||||| |   |    ||| | ||| | ||| |  |                
TGAAATTCAATGTTAACCGTGTTGACAACATGGTCATTCAAGCAATTTTCCTTCTTGATACACTTGATAAGGATATTAATTCATTCTCCATGAGAGTCAGgtagtttgtgttcaacagtgaatactctaataagtctataattttcatactctaaatagttttcttccttt--aaggaaattattaaactcgaaagagttcaattctctgctattcatcaattgtatgcag

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA05G03150.1 (Glycine max), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtt-tgttattaatattcgtccacaaaccttgtctttggtgattgttatcttcaatccgacatatattatttat--tccttcggagct-----aatccactggtcctg----------------------
||||||| ||||| ||| | || || || ||||| ||||| || ||||||||||| ||||| ||||| || ||||| ||||| |||||||||||||||||||  | |   | | ||| |    |  |  |  |  | |   ||| |  | ||||||   |  | | || |||     | ||  || ||     ||| || |  ||                         
TGAAGTTTAATGTTAACCGTGTAGACAACATGGTTATTCAAGCTATCTTCCTTCTTGATACACTTGACAAGGATATTAATTCATTCTCCATGAGAGTCAGgtagtatgtctcaaatttgaatgctcaattaattataga--attttcttattcaatataatttgttttctttgagaacattgtgaactggaagaattcatttctctatttgctttgtcaattatgtgcag

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G13770.1 (Glycine max), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgt--ttgttattaatattcg----tccacaaaccttgt--ctttggtgattgttatc-ttcaatccgacatatattatttattccttcggagctaatccactggtcctg-------------------
||||||| ||||| ||| | || || || ||||| ||||| || ||||||||||| ||||| ||||| || ||| | ||||| |||||||||||||||||||  |   | | || ||| |    || |  ||  ||     |||  || |    ||  ||   |||     | |  |||| |    | | ||            |  ||                   
TGAAGTTTAATGTTAACCGTGTTGACAACATGGTTATTCAAGCTATCTTCCTTCTTGATACACTTGACAAGGATGTTAATTCGTTCTCCATGAGAGTCAGgtagtatgtttcaacattggatgctcaattaattttaaaattttcatggtcaaaataatttgttccctttgagaaaatttgtaaactggaaggattcatgtaacttttggcttgtcaattatgtgcag

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G56110.1 (Arabidopsis thaliana), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttat-taatattcgtccacaaaccttgtctttggtgattgttatcttcaatccgacatatattatttattccttcggagctaatccactggtcctg
||||||||||||| ||| |||| ||||| ||||| ||||| || |||||| | || || || |||||||| ||||||||||||||  |||||||||||||||||||| | |  | |||     || |   ||| |||       |  |  |   | | ||  | | |    | ||  | | |                   
TGAAGTTCAATGTTAACCGAGTGGATAACATGGTTATTCAAGCTATCTTCATGCTTGACACGCTTGATAAGGATATCAATTCCTTTGCCATGAGAGTCAGgtttgttttgtgcttttccctttcagattgtgtgttttcctcgagaaaattggtagctgaactgtttataatgttattacag-------------------

upper sequence: Vv17s0000g01720.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT3G12860.1 (Arabidopsis thaliana), 5'ss of exon 3
TGAAGTTCAATGTGAACAGAGTCGATAATATGGTCATTCAGGCCATCTTCCTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttattaatattcgtccacaaaccttgtctttggtgat-tgttatcttcaatccgacatatattatttattccttcggagctaatccactggtcctg---
||||||||||||| ||| | || ||||| ||||| ||||| || || ||| | || || || |||||||| ||||||||||||||  | |||||||||||||||||| ||  ||||            ||| ||||     | |||  | |    | |   |      | |  || ||  | |||| ||    || |  ||   
TGAAGTTCAATGTTAACCGGGTGGATAACATGGTTATTCAAGCTATTTTCATGCTTGACACACTTGATAAGGATATCAATTCCTTTGCTATGAGAGTCAGgtttgtt-ttcttatt---------gttttgcctttcagattatgtcttgtctgttaccgtaagagaaaatggtttctgagcagctcatattatgtttttgcag

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|110712950|gb|EE088442.1|EE088442
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAA                         GGAATGGTACTCTTAGCATTTCCCTGAAGT-GGTGAAGATAGTGAATGACA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGA-GTTGGTGAAGATAGTGAATGACA
EST: gi|110686032|gb|EE063274.1|EE063274
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTGAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|110690304|gb|EE067284.1|EE067284
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTGAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|110718517|gb|EE095438.1|EE095438
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTCAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|33405708|gb|CF211335.1|CF211335
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTCAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|161719328|gb|FC068961.1|FC068961
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTGAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|33404147|gb|CF209774.1|CF209774
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTGAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|110701410|gb|EE078950.1|EE078950
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTCAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA
EST: gi|161720525|gb|FC070912.1|FC070912
EST:     CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAG                         GGAATGGTACTCTTGGCATTTCCCCGAGTTGGTGAAGATAGTCAATGACAA
genomic: CTTCTCGATACTCTTGATAAAGATATCAATTCCTTCTCCATGAGAGTCAGgtttgttatt ... caatttgcagGGAATGGTACTCTTGGCATTTCCCTGAGTTGGTGAAGATAGTGAATGACAA