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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaatatctgtttcttgttttcaatgcagtaatatattgctctaacactgtggtctgtcctgtgtag

Basic information

species Vitis vinifera
transcript Vv09s0002g06040.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os01g34620.7 (Oryza sativa), 5'ss of exon 6
CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaatatctgtttcttgttttca-atgcagtaatatattgctctaacactgtggtctgtcctgtgtag--------------------------
| ||||||| ||||||||||||||||| || || || |||||  | |||||||||||||| ||  |  | ||||| ||||  | |     |||   |  | | || |  |   ||  || |   || || |    |||  ||    || ||  |   |                            
CAACTGGCCTACATTTCCACAAATATTTATCAAAGGAGAGTTTGTTGGGGGATCTGATATCATATTAGATATGCATCAGGCAAgtgagcttattg-tccccggttttcataaccatgtgtatccatctactttcttaattcttaactcagtaattgattccttatttgtgtaattttcttcagaag

upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os01g34620.5 (Oryza sativa), 5'ss of exon 6
CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaatatctgtttcttgttttca-atgcagtaatatattgctctaacactgtggtctgtcctgtgtag-----------------------
| ||||||| ||||||||||||||||| || || || |||||  | |||||||||||||| ||  |  | ||||| ||||  | |     |||   |  | | || |  |   ||  || |   || || |    |||  ||    || ||  |   |                         
CAACTGGCCTACATTTCCACAAATATTTATCAAAGGAGAGTTTGTTGGGGGATCTGATATCATATTAGATATGCATCAGgcaagtgagcttattg-tccccggttttcataaccatgtgtatccatctactttcttaattcttaactcagtaattgattccttatttgtgtaattttcttcag

upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G080722_T01 (Zea mays), 5'ss of exon 6
CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaata-tctgtttcttgttt--tcaatgcagtaatatattgct-ctaacactgtggtctgtcctgtgtag--
  ||||||| || |||||||||||||| || || || |||||| | |||||||||||||| || |||| |||||||||||  |   | || |    || |||  ||  ||| |   | |    |   || |  |   || |   | |  ||   ||| | |    
TAACTGGCCTACGTTTCCACAAATATTTATCAAAGGAGAGTTCGTTGGGGGATCTGATATCATACTCACCATGCACCAGgcaaggctttaaacttttaatctagttactgtatgacccagatggcgttaaacggagactgaatttttcttcacccctttcttcag

upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G22430.1 (Glycine max), 5'ss of exon 5
CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaatatctg--tttcttgttt-tcaatgcagtaatatattgctctaac--actgtggtctgtcctgtgtag
  ||||||| |||||||| ||||| ||||| ||||| ||||| || || ||||| |||||| ||||||| ||||||||||||  || |  | | |||   |   ||| ||  || | | |    | || || ||  ||     |   |  | |  ||   ||||
TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGATATTGTTCTCAATATGCACCAGgttggttcccgtttaaatgcttagtttttttacttgtgactattattatgtactgtactgtttaataatatttttaccctcgtag

upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA07G03660.1 (Glycine max), 5'ss of exon 5
CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaatatctg--tttcttgttt-tcaatgcagtaatatattgctctaac--actgtggtctgtcctgtgtag
  ||||||| |||||||| ||||| ||||| ||||| ||||| || || ||||| || ||||||||||| ||||| ||||||  || |  | | |||   |   ||| ||  || |   |    | || || ||  ||     |   |  | |   |   ||||
TAACTGGCCAACATTTCCTCAAATTTTCATCAAGGGAGAGTTTATTGGTGGATCAGACATTATTCTCAATATGCAACAGgttggttcccgtttaaatgcttagtttttttacttgtggctattattatgtactgtactgttcaataatatttttatcctcgtag

upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA13G44000.1 (Glycine max), 5'ss of exon 5
CCACTGGCCCACATTTCCACAAATATTCATAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttctatatcaata-tctgtttcttgttttcaatgcagtaatatattgctctaacactgtggtctgtcctgtgtag
  ||||||| |||||||||||| | ||||| ||||| ||||| || || ||||| |||||| |||| || ||||| |||||||||  | || |||| | | | | | || ||||   ||   |  |  | | || |   ||  |  |        |||||
TAACTGGCCAACATTTCCACAAGTTTTCATTAAGGGAGAGTTTATCGGTGGATCAGATATTGTTCTTAATATGCATCAGgttaatacccatttcaagagtttttatatttttttacttgttattttgaactcctgtttgaccatacttgacatcatgtag

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|110362287|gb|EC925809.1|EC925809
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|26265925|gb|CA816988.1|CA816988
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|110382727|gb|EC947047.1|EC947047
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|110382466|gb|EC946757.1|EC946757
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|28959221|gb|CB339611.1|CB339611
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|33409086|gb|CF214713.1|CF214713
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|26263944|gb|CA815007.1|CA815007
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG