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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatcgatagatcgtcaaaagtataccacggaggtttggcgaaatggtaaattgttgagcttcgtttggtgttcgaattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA

Basic information

species Vitis vinifera
transcript Vv04s0023g01430.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g10140.1 (Oryza sativa), 3'ss of exon 1
---------------------------gtaaaatcgatagatcgtcaaaagt-ataccacggaggtttggcgaaatggtaaattgttgagcttcgtttggtgttcgaattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA
                           |   |||      |  || |   || ||  |  |  | |     |  | ||| |    | |||| |   || | ||     |  ||||||||| || ||||||||||| ||  |||| |||||||| ||  ||||||| ||  | || ||||| || ||||||||||| ||||||||||| ||||||||
gtgactgactagttaaccgtaccggttgcttaatttgactagagttatgcgtgatggcgagatgatcgatggcgacggtgaccgatcgagcgttcgttcgcgt---ggtggtgcagATCCTGATGCGGAGGTGATCGCGCTGTCGCCCAAGACGCTGCTGGCGACGAACAGGTTCGTTTGCGAGATCTGCAACAAGGGGTTCCAGCGCGACCAGAA

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G171073_T02 (Zea mays), 3'ss of exon 1
---------------------------------------gtaaaatcgatagatcgtcaaaagtataccacggagg--------tttggcgaaatggtaaattgttgagcttcgtttggtgttcgaattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA
                                        || | | |   ||         |  | ||  |||          |||| ||  || |         | ||   |   |  ||     |   |||||||| |||||||||||||| ||  |||| |||||||| ||  ||||||| || || || || || || ||||||||||| ||||||||||| ||||||||
gtgattgatatttttttgttttgttttgtttttagtcgtttatagtggtccgaggtgtgtgtgcgtgccggggatagctagctctttgtcgtgatcgatggcgacggcgccgtggccgtggtggtggtggcgcagATCCTGACGCGGAGGTGATCGCGCTGTCGCCCAAGACGCTGCTGGCGACGAACCGGTTCGTGTGCGAGATCTGCAACAAGGGGTTCCAGCGGGACCAGAA

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G06510.1 (Glycine max), 3'ss of exon 1
gtaaaatcgatagatcgtcaaaagtataccacggaggtttggcgaaatggtaaattgttgagcttcgtttggtgttcgaattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA
|||       || |  ||  |||  | || |   |       | || |  | ||||      |||| ||     ||     ||  |||||||||| || |||||||| ||| | || |||||||||||  | ||||| || || || || || || || ||||||||||| |||||| ||||||||||
gtagttgtagtaaaa-gt--aaaacaaactaacaaacacgcaccaatt--tcaattaaatctcttctttattccttttttcttatcagATCCGGAGGCAGAGGTGATCGCTCTCTCGCCCAAGACTCTCTTAGCGACGAACCGTTTCGTGTGCGAGATATGCAACAAAGGATTCCAGAGAGACCAGAA

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G50700.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaaatcgatagatcgtcaaaagtataccacggaggtttggcgaaatggtaaattgttgagcttcgtttggtgttcgaattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA
||||| |  | | |||    ||| | ||  |       |     || |  | |||| |||   ||    |  ||| |   || | ||||||| ||  | || || || ||||| || || || ||  || | || |||||  ||||||||||||||||||| ||||||||||| ||  ||||||||||
gtaaacttcaaaaatcc---aaactttattataa---ctcaa--aatttctcaatttttg---ttaaagttttgtcctttttatacagATCCAGAGTCAGAAGTTATAGCTTTATCACCAAAAACATTACTAGCAACAAACAGATTTGTTTGTGAAATCTGTAACAAAGGGTTTCAAAGAGACCAGAA

upper sequence: Vv04s0023g01430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S125_69V6.1 (Physcomitrella patens), 3'ss of exon 1
-----gtaa--aatcgatagatcgtcaaaagtataccacggaggtttgg-cgaaatggtaaattg-ttgagcttcgtttggtgttcgaat---tttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA
     || |  | ||     ||      |  |  | |  |    |  |  ||  | ||| ||||  ||    |||  ||||| || || |   |  ||||| ||||| ||||||||||| |||||||| || |||||  | ||||| || |||||||| || || ||||| || ||||| ||||| |||||||| || ||
ccttcgtgattagtctgcgaatgtctctagctcgaacgtgtttttaagatcgtgaaggtgaattaattttttttccattggtattggattgaatacgcagACCCGGAAGCGGAGGTGATAGCTTTGTCACCAAAGACATTGATGGCCACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGGTTTCAGCGAGATCAAAA

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|161718371|gb|FC064777.1|FC064777
EST:     GCCACCCAAGCCCGCACCCAAGAAAAAACGAAACCTCCCCGGAATGCCAG                         ATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTCATGGCGACAA
genomic: GCCACCCAAGCCCGCACCCAAGAAAAAACGAAACCTCCCCGGAATGCCAGgtaaaatcga ... aattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggtttggcgaaatggtaaattgttgagcttcgtttggtgttcgaattttgcagATCCGGACGCGGAGGTGATTGCTTTGTCTCCCAAGACTCTAATGGCGACAAATCGATTTGTTTGTGAAATCTGCAACAAAGGGTTCCAGCGAGACCAGAA
                 taaattgtt  TA-rich tract