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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACAGCGGCCACGGCACTCGACTCCCTGCCGAGACCGGAGAGGACGACGACACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcag

Basic information

species Vitis vinifera
transcript Vv19s0085g01030.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os05g41670.1 (Oryza sativa), 5'ss of exon 1
TACAGCGGCCACGGCACTCGACTCCCTGCCGAGACCGGAGAGGACGACGACACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcag------
|||||||||||||| || || || || || ||||||||  |||||||||||||||||||||||||||||||||| ||  | |||||||| || || || ||| |      |     || || || |     | |  | || || |  |    ||||  ||     | ||    || |     ||   ||| || |      
TACAGCGGCCACGGGACGCGGCTGCCGGCGGAGACCGGCCAGGACGACGACACCGGCTACGACGAGTGCATCGTGCCCTCCGACATGAACCTCATCACAGgtgattgctccgcgcgctgctgtc-tacattttttttgtcgtcctgcttcggaattggggatcgaataggcgagatttgagagggacgttgtccgattgtt

upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os01g58580.1 (Oryza sativa), 5'ss of exon 1
TACAGCGGCCACGGCACTCGACTCCCTGCCGAGACCGGAGAGGACGACGACACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagcca-aagtaatgactgtgacggttt----gttttcag
||||||||||||||||| || || || |||||||| ||  || |||||||||||||||| |||||||||||||| || |  |||||||| ||||| || |||   |     || |    ||| |  ||     || | ||  | |||    || |  ||  | | | |||   | |  || | |  ||    ||| |  |
TACAGCGGCCACGGCACCCGTCTGCCCGCCGAGACAGGGCAGAACGACGACACCGGCTATGACGAGTGCATCGTTCCCAGCGACATGAACCTTATCACAGgtgcgatcgggaactggcccttcccctttgtgttcttttctacctttatcatactgttgcaatcgataagctgtaaaagttaggagttcaaagttgtgtg

upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os05g41660.1 (Oryza sativa), 5'ss of exon 1
TACAGCGGCCACGGCACTCGACTCCCTGCCGAGACCGGAG---AGGACGACGACACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatcacaaattcttctttcatttccctct--catctcatcgttttctctaattctgggagccaaagtaatgactgtgacggtttgttttcag
   || |||||||||   |  || ||   ||||||||| |   | |||||||||||||||||||||||||||||||| ||    |||||||| || || |  |||  | |||  | |        | || || | ||  || |   |   | |  |||   ||   |    |    |   ||| || | |          
---AGTGGCCACGGCTTGCAGCTGCCGATCGAGACCGGCGGTGACGACGACGACACCGGCTACGACGAGTGCATCGTGCCCTGCGACATGAACCTGATCAAAGgt-gatatcggagacaaacacctgatctctcgctaacacccagtatatatggctatcactc--atttgacacgagagctg-gatgatgcag------

upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G066041_T01 (Zea mays), 5'ss of exon 1
TACAGCGGCCACGGCACTCGACTCCCTGCCGAGACCGGAGAGGACGACGACACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatcacaaattcttctttcatt---tccctctcatctcatcgttttctctaattctggga--gccaaagta-atgactgtgacggtttgttttcag
|||||||| |||||||  || || || |||||||||||  |||||||||||||||||||||||||||||||||| ||    |||||||| ||||| || |||       |      | ||| |   |   |  || | |    |  | |    ||     ||| |      ||||  || | || ||  |  | | |||  
TACAGCGGGCACGGCATACGGCTGCCCGCCGAGACCGGGAAGGACGACGACACCGGCTACGACGAGTGCATCGTGCCCTGCGACATGAACCTTATCACAGgtgtgcgagatgtgcccctctgttgctaagttgctatgaaaatagggatcgaactgtaggtggaattattgaagtgtataagtg-gattgcatatcttctt

upper sequence: Vv19s0085g01030.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G047274_T01 (Zea mays), 5'ss of exon 1
TACAGCGGCCACGGCACTCGACTCCCTGCCGAGACCGGAGAGGACGACGACACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatcacaaattcttctttcatttccctctcatctcatcgttttctctaattctgggagcc--aaagtaatgactgtgac--ggtttgttttcag-
||||||||||||||||| || || || |||||||| ||  || ||||||||||||||||||||||||||||||| ||    |||||||| || || || |||       |   || | |    | | |||        || |  |   ||   |   ||  |  |   || |  | |    |||  | |  |  || || 
TACAGCGGCCACGGCACGCGCCTGCCAGCCGAGACGGGGCAGCACGACGACACCGGCTACGACGAGTGCATCGTGCCCTGCGACATGAACCTCATCACAGgtgcggtcgagggatccattaaccttctcctctgtgcttcgttttccccttgcaaagtgctactctggaactggtaaaaacgacacgatcagcatttaga

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|37188481|gb|CF607830.1|CF607830
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161705965|gb|FC054896.1|FC054896
EST:     CATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161721224|gb|FC070730.1|FC070730
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|351029453|gb|FQ436847.1|FQ436847
EST:     CACCGGCTACGACAAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|110686229|gb|EE063639.1|EE063639
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|110692447|gb|EE071701.1|EE071701
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|110374997|gb|EC939948.1|EC939948
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161713499|gb|FC064052.1|FC064052
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
EST: gi|161706169|gb|FC055400.1|FC055400
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTG
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTG
EST: gi|37188390|gb|CF607739.1|CF607739
EST:     CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCG                         ATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA
genomic: CACCGGCTACGACGAGTGCATCGTCCCTACTGACATGAATCTTATTACCGgtcaaaatca ... ttgttttcagATGACGATTTCAGGTCTTTTGTGGACAAGGTTCCGGAGGGTTGCCGCATTA