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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcctttttattgtgtgtcaaaatatatattacttcaataatattgtgcatatatatcatcgtacttgaaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT

Basic information

species Vitis vinifera
transcript Vv04s0023g02970.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
gtactcctttttattgtgtgtcaaaatatatattacttcaataatattgtgcatatata-tcatcgtacttg--aaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT
||| |  | ||  |    |    |  | |  | | |       || || |    | | | |||   | ||||  ||  ||     |   || | ||    |||||||| || |  || ||||| ||||| || ||||||||||  ||||| ||| ||||||| ||||| || ||||| || |||||||||||||||| | | ||  
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G116434_T01 (Zea mays), 3'ss of exon 10
--gtactcctttttattgtgtgtcaaaatatatattact-tcaataatattgtgcatatatatcatcgtacttgaa-agt-tctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT
  ||      ||| ||         |  | |  |  ||| | ||||  ||  |   ||| |  | | |   | ||| ||  | |      | | |||||   |||||||| ||||  || ||||| ||||| ||||| |||||||  ||||| ||  ||||||| |||||||| | |||||||||||||||||| || |   ||||  
gtgtggagtatttcatcacactaggatttgtgcaacactgtaaatagcatcttttttat-tggcttggatttggaatagcatattgacagactttattgtccttgcagACACATAGGATAAAGAAGTTTGTTTTGCATACAAACTTCCCTGGCCACTCAGATTTCAATTCATATAAGAAATGCAACTTTGTTATATACGACGCTGAAG

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 10
gtactcctttttattgtgtgtcaaaatata-tattacttcaataatattgtgcatatatatcatcgtacttgaaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT
             ||||   | | |  ||  | ||  ||| |||  | |||||      |  |  |    || ||  || || ||   |||  || |||| |||||||| ||||||||||| ||||| || ||||| ||||  ||||| ||||| ||||| ||||| ||||| || |||||||||||| ||||||| || ||||
-----------gtttgtaacttacatcatgcttttgtttctata-caatgtgccacagcacaactgataatggaaactcccacatgtctgt--tgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 10
gtactcctttttattgtgtgtcaaaatatatattacttcaataatattgtgcatatatatcatcgtacttgaaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT
               || ||| ||  || ||  | |||   |     |    |   | |  |  |    |  ||  ||  | ||   ||| ||  |||| |||||||| ||||||||||| ||||| || ||||| ||||  ||||| ||||| ||||| ||||| ||||| || || |||||||||||| |||| || ||||
---------------gtttgt-aacttacatcatgcttttgtttctatacatagtgacacaactgataatagaaactcctacatgtctgtttt--attttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGTAACTTTGTTATCCATGGCTCAGATT

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|110716734|gb|EE091976.1|EE091976
EST:     ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGACAG                         ACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
genomic: ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGGCAGgtactccttt ... ggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
EST: gi|110698037|gb|EE075591.1|EE075591
EST:     ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGACAG                         ACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
genomic: ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGGCAGgtactccttt ... ggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
EST: gi|30330416|gb|CD013678.1|CD013678
EST:     ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGACAG                         ACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
genomic: ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGGCAGgtactccttt ... ggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
EST: gi|30329939|gb|CD013201.1|CD013201
EST:     ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGACAG                         ACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA
genomic: ACTTCTACAATTATTTTGATCGTGGTTTGGACATACTATTTGATGGGCAGgtactccttt ... ggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcatatatatcatcgtacttgaaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATT
                                  attattgtatt  TA-rich tract