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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag

Basic information

species Vitis vinifera
transcript Vv18s0072g00080.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgta-------tattctgattgctctgtgtgtttaagcttacattttattgta-ataattgcagaagttacatctctaatttaactgtcag
| | ||  | ||||| ||  | ||||| || || ||||| ||||| || |||||||| |||||||||||||| ||||||||||| || || |||||||||||        || | | |   |  | | | || ||  ||| | |  |  | | ||| |       ||| |||  ||  || |        
TTTACCATTGCCAGAACTCGTTAAATTCGTCTTTTTTGCAAACTTATCAATTGTTGGGATGAATGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgggaagagtaattttaaatccttctatattcaatgttagaatggagggcacatactaattttcgtttcatgcctc-ttcag-------

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacatttt-attgtaataattgcagaagttacatctctaatttaactgtcag
  | ||  | ||||| ||  | |||||||| || ||||| ||| | || |||||||| |||||||||||||| ||||||||||| || || ||||| |||||  |    | |  ||  ||   || | | | || |||  | |   ||   |  |  | ||      || ||     | ||||
CTTACCAGTGCCAGAACTAATAAAATTTGTCTTTTTTGCAAACCTATCAATTGTTGGGATGAATGTTAGTTTGATGTGGAACTCTGTTGGATTCTACCAGgtgaagaaag-taactaagtcctttaatgttcacttttagaattggatgcatatactaatt-tgctcctcatgcctttttcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os12g05830.1 (Oryza sativa), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctg-attgctctgtgtgtttaagctta-cattttattgtaat----aattgcagaagttacat--ctctaatttaactgtcag
  | || || ||||| ||  | ||||||||  | ||| ||||||| || ||||||||||||||||| || || ||||||||||| || ||||| ||||||||       | || | ||||   | | ||    | |||    ||| | |    | || || ||| || |     ||  | |     ||||
CTTACCACTGCCAGATCTGATTAAATTTGTGATCTTTTCGAACTTGTCGATTGTTGGAATGAATGTGAGCTTGATGTGGAACTCTGTGGGGTTTTATCAGgttagcaaaggatggttctgctagctaaattccatcatggctttgaactttcaagtttcaaaagctaaagaatccttttgttctcttcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os12g05780.3 (Oryza sativa), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgt-atattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttaca---tctctaatttaactgtcag
  | ||  | ||||| ||  | || |||||  | ||| ||||||| || ||||||||||||||||| || || ||||||||||| || || || |||||||| |      ||  | |||    | |  || || |||  |    | | | || ||     || |   ||  |  | |  |  ||||
CTTACCAATACCAGATCTGATTAAGTTTGTGATCTTTTCGAACTTGTCAATTGTTGGAATGAATGTGAGCTTGATGTGGAACTCTGTGGGATTTTATCAGgttagcaaaggaccgttctagtagct--agattccatcatggctttaaactttcaactactaaacaatcctttttcttcccttcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G089630_T04 (Zea mays), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag
||| ||  | || || ||  | ||||| |  || ||||||||| | ||||||||||| |||||||| || || ||||||||||| || || |||||||||||  |  | ||    ||  | | | ||    || ||   | |  ||    |  |         ||| |  |     | ||||
TCTACCGTTACCTGAACTAGTAAAATTCGCCTTTTTTGCGAACCTGTCTATTGTTGGGATGAATGTAAGCTTGATGTGGAACTCTGTTGGATTCTATCAGgtgcagacagaaacttcgatat-tctataagtatatcggaattaaacttgtatactgacgctgtctgtcttgcctttttcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G071378_T02 (Zea mays), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttaca-ttttattgtaataattgcagaagttacatctctaatttaactgtcag
  | |||||  |||| ||  | ||||||||  ||||| ||||||| || |||||||| |||||||| || || ||||||||||| || || || ||||||||   |     ||    |   || |  |   | ||   |||   |  |||   | ||| | |    |||| |       ||||
CTTACCCCTAGCAGATCTAGTTAAATTTGTGATATTTTCGAACTTGTCAATTGTTGGGATGAATGTGAGCTTGATGTGGAACTCTGTGGGCTTTTATCAGgttggtgaaatttttagtagctgctataatatgcaaccttaaattgttaacaactgaattcat---tctattcccttgctcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G147446_T01 (Zea mays), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactg-tcag
  | |||||  |||| ||  | ||||||||  ||||| ||||||| || |||||||| |||||||| || || ||||||||||| || || || |||||||| |  |  ||||  |  ||   |   |  |||       ||| |||  ||        ||    | | |||    || ||||
CTTACCCCTAGCAGATCTAGTTAAATTTGTGATATTTTCGAACTTGTCAATTGTTGGGATGAATGTGAGCTTGATGTGGAACTCTGTTGGCTTTTATCAGgt-tggtgagattttttagtagctgctatattatgcgaccttg-aatcgttaacatctatattcattttattcccttgctcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 2
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag
| | ||  | ||||| ||  | || ||||  || ||||| ||| | || || || |||||||| |||||||| ||||||||||| || || |||||||||||     | ||    |  || | | ||    || |||  | |  ||    |  |  | |    | | |  |     | ||||
TTTACCATTACCAGAACTAGTAAAGTTTGCCTTTTTTGCAAACCTGTCGATCGTCGGAATGAACGTTAGTTTGATGTGGAACTCTGTTGGATTCTATCAGgtgagggcagaaactttggtat-tctataagtatattggagttaaacgtatatactaatgctgtgtatcttgcccttttcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA10G36620.1 (Glycine max), 5'ss of exon 2
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag---
| | ||| | ||||||||||| |||||||| || ||||| |||||||| ||||||||||||||||| ||| |||||||||||||||| || |||||||| ||   || | ||||   | |   | |  |   |   |  |||  |||   | ||||||||| || |     |||||  |  |   
TTTACCCTTACCAGAGCTTCTAAAATTTGTTTTCTTTGCTAACTTCTCCATTGTTGGAATGAATGTCAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttgt-attgaattttcactattggtccaaggtccatt--aatgcattcagaagttaaattttcttcttaaccattggcag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag---
| | ||| | ||||| ||||| ||||||||  | ||||| |||||||||||||||||||||||||||||| |||||||||||||||| || |||||||| ||   ||  |  ||  || | | | |  | | |   || |||  |||   | ||||||||| ||      |||| |  |      
TTTACCCTTGCCAGATCTTCTAAAATTTGTTCTCTTTGCTAACTTCTCTATTGTTGGAATGAATGTTAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttg-ggctgagctttatctattggttaa---ttcatt--aatgccttcagaagttatattcactttttagccattgacag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA16G27820.1 (Glycine max), 5'ss of exon 2
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagtta-catctctaatttaactgtcag---
| | ||| | ||||| ||||| ||||||||  |  |||| |||||||||||||||||||||||||||||| |||||||||||||||| || |||||||| ||   ||  |  ||  || | | | |  | | |   || | |  |||   | |||||||||  ||      |||| |  |      
TTTACCCTTGCCAGATCTTCTAAAATTTGTTCTCGTTGCTAACTTCTCTATTGTTGGAATGAATGTTAGTCTAATGTGGAACTCAGTTGGATTCTATCAAgtgagttg-ggctgagctttatctattggttca---ttcact--aatgccttcagaagttaatattcactttttagccattgacag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag
||| ||  || |||||||||| || ||| |  | ||||| || || || ||||||||||||||||||||| | ||||||||||| || ||||| ||||||||| ||  || ||||| | ||||||  |  | || |||  |  |  |  ||  |   ||  | |||||  | |   |  |||
TCTTCCATTTACAGAGCTTCTTAAGTTTATTCTGTTTGCTAATTTTTCGATTGTTGGAATGAATGTTAGTCTTATGTGGAACTCTGTTGGGTTTTATCAGgtaaatg-tgtttgctttttgtgtt--atgtaacgtttcttgttgttggttctaatggtgtcttctcttttatgcttaacag

upper sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 3
TCTCCCCCTTCCAGAGCTTCTGAAATTTGTATTATTTGCGAACTTCTCTATTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgtcag
||| ||  || | |||||| ||| |||| |  | ||||| || ||||| ||||||||||||||||| ||| | ||||||||||| || || || ||||||||||  |     |  |||   | | |||   |  |    | |||| |  |      |      ||     |||   ||||||
TCTTCCGTTTACGGAGCTTTTGAGATTTATTCTGTTTGCTAATTTCTCCATTGTTGGAATGAATGTCAGTCTTATGTGGAACTCTGTTGGTTTTTATCAGgtat--tagacatcatctagctctgtaattgtgaaaagaaatgtattgctgattttatgattgtcctgtttttgcttgtcag

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|161709701|gb|FC060180.1|FC060180
EST:     TTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAG                         ATTGCAAAGCTGAGTATGATTCCTGTGTCCTGCCTTTTGGAAGTTGTCTTG
genomic: TTGTTGGAATGAATGTTAGTTTAATGTGGAACTCAGTAGGGTTCTATCAGgtatattctg ... taactgtcagATTGCAAAGCTGAGTATGATCCCTGTGTCCTGCCTTTTGGAAGTTGTCTTG