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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtccaaaacccacaaataattggcgactttggtggattattctgtgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT

Basic information

species Vitis vinifera
transcript Vv09s0018g00240.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0018g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g08440.4 (Oryza sativa), 3'ss of exon 2
--------------------gtaa-gtccaaaacccacaaataattggc--gactttggtggattattctgtgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgttt-tacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
                     |||  ||| |    | ||  | ||  ||   ||||   |   || |  | ||||  | | ||    | | | | ||  |||  |   || |  |   |   | ||||||||||| ||||| ||||| |||||||| ||||| || ||||||||||  ||||||||||  || ||||||||||||| |||||| ||||||||   ||
gtacgaatccccaaccccaattaacatccgatcatctcatttcatgtgcctaacttaacttctttttgttctgaattctagccttg-attaattaattaatcctgttcttgcaatgaatccatgcagGTGGTGAAAGATGGGTACCAATGGAGGAAGTATGGTCAGAAGGTCACCAAGGACAACCCCTGCCCAAGAGCCTACTTCAGATGCTCATTTGCTCCCGCCT

upper sequence: Vv09s0018g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G02630.1 (Glycine max), 3'ss of exon 3
gtaagtccaaaacccacaaataattggcgactttggtggattattctg-tgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgtt-ttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
|||||||        || | || |      |||||||   |     ||    | || ||   |   || | || | ||  ||    |   | | |||  || ||| | || || ||||||||||| |||||||||||||| |||||||| |||||||| ||||| | ||| ||||| || ||||| |||||||||||||||||||
gtaagtctc---tttactagtactcaat--ctttggttcttggacatggcatagactatatagg-ggtaagtgtttgacagatttttcattgtgtgtggtttcagATTGTTAAAGATGGATACCAATGGAGGAAATATGGGCAAAAGGTGACCAGAGATAACCCTTGTCCTAGAGCATATTTCAAGTGCTCTTTTGCTCCTAGCT

upper sequence: Vv09s0018g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G00570.1 (Glycine max), 3'ss of exon 3
gtaagtccaaaacccacaaataattggcgactttggtggattattctgtgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
|||||      | |  ||| | |      |   |  |  |  ||| | ||  ||  |    || ||       |   ||      |||||   |||||  ||| | ||||| |||||||| || |||||||||||||| |||||||| |||||||| ||||| ||||| ||||| || ||||| |||||||||||||| ||||
gtaagattcttaacagcaactgagcacaaaaagtcata-accattgt-tgtgcattagtttgacag------gtttttcattttttttctacttgtttc-cagATTGTGAAAGATGGATATCAATGGAGGAAATATGGACAAAAGGTGACCAGAGATAACCCTTCTCCAAGAGCATATTTCAAGTGCTCTTTTGCTCCAAGCT

upper sequence: Vv09s0018g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G23380.3 (Glycine max), 3'ss of exon 3
gtaagtccaaaacccacaaataattggcgactttggtggatt-attctgtgaacaccatccggata--gtgaatgatcgatcgagcaatttctttatgtt-ttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
         |  | |   | || |   |  |||||||   || |    |   | || ||    |||  || | || | ||  ||    |   | |||||  ||  || | ||||| ||||||||||| |||||||||||||| |||||||| |||||||| ||||| |  || ||||| || ||||| |||||||||||||| ||||
------gtgagtctctttactagtactctcctttggttctttgacatagcatagactatttaaatagggtaagtgtttgacagatttttcattgtatgtggttttagATTGTGAAAGATGGATACCAATGGAGGAAATATGGACAAAAGGTGACCAGAGATAACCCTTACCCTAGAGCATATTTCAAGTGCTCTTTTGCTCCAAGCT

upper sequence: Vv09s0018g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G44730.1 (Glycine max), 3'ss of exon 3
gtaagtccaaaacccacaaataattggcgactttggtggattattctgtgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
        || |  |  ||  |      ||   |      | |||     | ||   |   |     |  |||  |      || ||| ||  ||| |  ||| | ||||| |||||||| || |||||||||||||| |||||||| ||||| || ||||| ||||| ||||| || ||||| |||||||||||||| ||||
------gtaagattcttaa-cagcaactgagcataaaaagtcatt-----accattgttgtgcattagtttgacaggcttttcatttttttcgtgtatc-cagATTGTGAAAGATGGATATCAATGGAGGAAATATGGACAAAAGGTGACCAGGGATAACCCTTCTCCAAGAGCATATTTCAAGTGCTCTTTTGCTCCAAGCT

upper sequence: Vv09s0018g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G80840.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtccaaaacccacaaataattggcgactttggtggattattctgtgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
|||||      |  ||  || |||   | |  |||||  ||   ||| |    |  | |   ||  |  ||| |  |  ||         || | | ||| |||| ||||| ||||| || || |||||||||||||| || || || || |||||||| || ||||| ||||| |||||||||||  ||| |||||| ||||
gtaagc-----attcatgaa-aatgatcaaacttggt--atctatctatctttagaaactttattttatatggtttactgattgtagaagttgtttcttatagGTTGTGAAAGATGGGTATCAATGGAGGAAATATGGACAGAAAGTGACTAGAGACAATCCATCTCCAAGAGCTTACTTCAAATGTGCTTGTGCTCCAAGCT

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|349818243|gb|FQ409018.1|FQ409018
EST:     CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTT                         GTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
genomic: CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTTgtaagtccaa ... tgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
EST: gi|349810369|gb|FQ401815.1|FQ401815
EST:     CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTT                         GTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
genomic: CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTTgtaagtccaa ... tgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
EST: gi|161713939|gb|FC062887.1|FC062887
EST:     CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTT                         GTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
genomic: CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTTgtaagtccaa ... tgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
EST: gi|161712086|gb|FC061458.1|FC061458
EST:     CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTT                         GTGGTGAAGGATGGA
genomic: CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTTgtaagtccaa ... tgttttacagGTGGTGAAGGATGGA
EST: gi|351054947|gb|FQ440286.1|FQ440286
EST:     CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTT                         GTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA
genomic: CCAAAATCTCAAGGGTCTATACGCGAACCGATGCATCAGATACCAGCCTTgtaagtccaa ... tgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaacaccatccggatagtgaatgatcgatcgagcaatttctttatgttttacagGTGGTGAAGGATGGATACCAGTGGAGGAAATATGGCCAAAAGGTCACCAGAGACAACCCCTCTCCGAGAGCCTACTTCAAATGCTCTTTTGCTCCTAGCT
                                     tttctttatgtttt  CT-rich tract
                                   aatttctttatgtttt  TA-rich tract