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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGAAATTTGGTGAGGAGGGTAACAAGTATTTCCGTCATGCTACTGGGCAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttccaaatgccgtttttagaaaaagtgactaattatcatgccaaaattttctgccctgacttggtgctctcataatggttatctag

Basic information

species Vitis vinifera
transcript Vv19s0090g00560.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os06g46570.1 (Oryza sativa), 5'ss of exon 9
-ACTGGAAATTTGGTGAGGAGGGTAACAAGTATTTCCGTCATGCTACTGGGCAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttccaaatgccgtttttagaaaaagtgactaattatcatgccaaaattt---tct------gccctgacttggtgctctcataatggttatctag
 ||  ||   ||||  |    ||| || |||||||||| ||||| ||||| ||  | ||||||||||||||||||||||| ||||| |||||||| ||| ||| ||    ||  ||   |   |     |  ||  | | | | ||   |  ||||   |||      | |   ||||| ||||     |||  |   | ||
AACCTGAGCATTGG-AAATTTGGTGACCAGTATTTCCGGCATGCAACTGGTCAATTGTATGCTATTTCAAAAGATTTGGCAACTTACATATCAATAAACAAgtgagccagcatctgaactgactgtttcatatgtttcactgttataatattatttaattcttgctaaggctaaacttgttgctaattcaataatg--ccag

upper sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 5'ss of exon 9
ACTGGAAATTTGGTGAGGAGGGTAACAAGTATTTCCGTCATGCTACTGGGCAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaag-----tttccaaatgccgttttta------gaaaaagtgactaattatcatgccaaaattttctgccctgacttggtgctc--tcataatggttatctag
|||||||||| || ||   ||| |||||||| ||||||||||| || || ||| ||||||| || || || ||| | ||| ||||||||||||| ||||||||||     | | || ||   ||||||       ||  |    |  |  | |  |  | ||    ||| |||    |||    |   | ||  || |  |  ||
ACTGGAAATTCGGCGAATGGGGGAACAAGTACTTCCGTCATGCAACCGGCCAGTTATATGCAATCTCCAAGGATCTAGCTTCTTATATATCAATCAACCAgtaagaaatttcttcagatttggtttttctttgttgattacaccataatatgttttatctaa--cctctacccatcattgaccatggatgatggtgatgtttcag

upper sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G007185_T01 (Zea mays), 5'ss of exon 9
ACTGGAAATTTGGTGAGGAGGGTAACAAGTATTTCCGTCATGCTACTGGGCAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagttt--ccaaatgccgtttttagaaaaagtgactaattatcatgccaaaattttctg-ccctgacttggtgctctcataatgg--ttatctag-------------------
||||||||||||| || | |||||| || ||||| || ||||| || || || || || ||||||||||||||||||||  | || |||||  | ||| ||| || |   ||  ||   ||  || |      | |  ||| |   |   | |    ||||  ||||  ||| |||   |||| |    |  | ||                    
ACTGGAAATTTGGGGAAGTGGGTAATAAATATTTTCGGCATGCCACCGGTCAACTGTACGCTATTTCAAAAGATTTGGCAGCCTACATATCGCTAAACAAgtgagatataccctatctagtagtttgtttctctcag-aatgacagtatgacaccactctgatcctgttttgttgcgaccatactaacatggtttatgctgattcgatcatcgcag

upper sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 9
ACTGGAAATTTGGTGAGGAGGGTAACAAGTATTTCCGTCATGCTACTGGGCAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttccaaatgccgtttttagaaa--aagtgactaatta---tcatgccaaaattttc-tgccctgacttggtgct--ctcataatgg-ttatctag----
||||||||||||| || ||||||||||| || ||||| ||||| || || ||||| ||||| || || |  || |||||  |||| ||||| || ||||||| ||||        | |  || | ||   ||   | ||||     | ||||  |||   || | | |||| |  ||  |  |  |  | |  || | ||     
ACTGGAAATTTGGAGAAGAGGGTAACAAATACTTCCGCCATGCCACAGGTCAGCTCTATGCAATATCCAGGGAGTTGGCGTCTTACATATCGATAAACCAgtgagttatttcccactgccttgacaatccaaaaaattaatctgctttatgcttaaacgctcatacgctgattgtgtattaaccaaggacgaattgtgtatacag

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|34544134|gb|CF512366.1|CF512366
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|349826233|gb|FQ416038.1|FQ416038
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|71875910|gb|DT024965.1|DT024965
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|77583730|gb|DV220900.1|DV220900
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|34544220|gb|CF512452.1|CF512452
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|71875911|gb|DT024966.1|DT024966
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|110385919|gb|EC950479.1|EC950479
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|351046999|gb|FQ454609.1|FQ454609
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|110712361|gb|EE089898.1|EE089898
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
EST: gi|351056608|gb|FQ442436.1|FQ442436
EST:     CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCA                         GCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT
genomic: CAGCTATATGCTATTTCAAAAGATTTGGCTACTTATATATCAATTAACCAgtaagtttcc ... ggttatctagGCATGTGCTTCACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTT