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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
gtacccatcattgtcttctgatggatgatccagatcg----acttgtaaacttatttcttgctttcgct--aatattggtc---tgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT
|||    |   |   ||  | | ||   |||   |      |||| | |  ||  ||||   | |      || ||  |||   | ||||| ||||||||||||| ||||||||  | || ||||||   ||| ||||||| ||||||||||| ||||| ||||| ||  | ||||||||  ||||  |||
gtattt-ttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
gtacccatcat-tgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgct--aatattggtc---tgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT
|||      |  | |  | | |       |        |||| | |  ||  ||||   | |      || ||  |||   | ||||| ||||||||||||| ||||||||  | || ||||||   ||| ||||||| ||||||||||| ||||| ||||| ||  | ||||||||  ||||  |||
gtatttgctacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
----gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT
    |      ||||||| ||||     || |    || |  |||  |    || || |||     |||    |   | ||| |||  ||| |||||||||| |||||||||||||||||||   ||| ||||||| |||||||||||||  ||||| |||||| |||||||||| || || || |
gtatggtggtgtcattgttttct-----ataacttggaacttcttaaa----taattgttgacaaagctttcgt--atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 19
----gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT
    |      ||| ||| ||||     || |    ||   |||| | ||   |||  |||     |||    |  || ||| |||  ||| |||||||||| |||||||||||| ||||||   ||| ||||||| |||||||||||||  ||||| || ||| |||||||||| || || || |
gtatggtggtgtcagtgttttct-----ataacttgga---acttattaaacaattg-ttgacaaagctttcttatgtgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGCGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAGGGACTGTACTTTTTCCTTGGATCAT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT
      ||  |  | |  || || | |||    ||    ||||    | || |    ||  ||     ||  |||| ||||| ||  ||| || || | ||||||| | |||||||||  |||| | ||||||||||||||||| || || ||||||||  |||||||||| || ||||| |
----gtat-gtgctgtattgttgtaagatgtgaattttattgt---ttaatgtgacactgacgtgtccat--gtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT

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|122689653|gb|EC942290.1|EC942290
EST:     AGGACCTTCTTCTGGTCAATCTAAGAGGCAACCTTCAGATAATTGTTCAG                         ACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTC
genomic: AGGACCTTCTTCTGGTCAATCTAAGAGGCAACCTTCAGATAATTGTTCAGgtacccatca ... gtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTC
EST: gi|122690707|gb|EC956547.1|EC956547
EST:     AGGACCTTCTTCTGGTCAATCTAAGAGGCAACCTTCAGATAATTGTTCAG                         ACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTC
genomic: AGGACCTTCTTCTGGTCAATCTAAGAGGCAACCTTCAGATAATTGTTCAGgtacccatca ... gtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT
                                  cgctaat  putative branch site (score: 3)
            ttgtaaacttattt  TA-rich tract