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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcttcattttttctttctgggtttttcactccttacaatcatccttcactggataaacgaatcactttccttttatcttttgtaatctcaacggaaagccattgactttggatggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT

Basic information

species Vitis vinifera
transcript Vv13s0067g00330.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G42290.1 (Glycine max), 3'ss of exon 4
gtattcttcattttttctttctgggtttttcactccttacaatcatccttcactggataaacgaatcactttcctttta-tcttttgtaatctcaacggaaagccattg-actttggatggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
                      |         |    |||||   || ||   |    |   |  || ||||  ||  | || ||||   |    |    |  | ||   | | |   ||| | ||    |||| ||||||||||||||||  ||||| ||||| |  ||  ||||  |||||||||| || ||||||||||| ||||||||||||||||| ||||||||||| ||
----------------------gtaagcaatgccaagtacaacggtcgttatttcttcagtggggtctctttatttgaagtcgtttgatttgatcataatacactatcacagtgtcactggctatt-taattttgcagGTTGAAAATGTGATTCACACTGGCCCAAAAAAATTGGTATTGTATTTCACGGGAGCCACCAACATTCTCTACACTTTCGGCGGGCACGCCGTCACAGT

upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G06600.1 (Glycine max), 3'ss of exon 4
-------------------gtattcttcattttttctttctgggtttttcactccttacaatcatccttcactggataaacgaatcactttccttttatcttttgtaatctcaacggaaagccattgactttg--gatggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
                    |  |||| |||| |||  |  ||| | |    |  ||  | || |       ||         ||||   |  | | |  |  |||||    ||   |||     | ||  ||    ||   | |    |||| ||||||||||||||||  ||||| ||||| |  ||  ||||  |||||||||| || ||||||||||| ||||||||||||||||| ||||||||||| ||
gtaagcaatgccaagtacaatggtctttatttcttcagt--ggggtctctcttatttgaagtcgtttgattttg---------atcataatattataacttagtgtaaaaaaaaaaaaaacattatcacggtgtcactgagctgtttaattttgcagGTTGAAAATGTGACTCACACTGGCCCAAAAAAATTGGTATTGTATTTCACGGGCGCCACCAACATTCTCTACACTTTCGGCGGGCACGCCGTCACAGT

upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G35080.1 (Glycine max), 3'ss of exon 5
gtattcttcattttttctttctgggtttttcactccttacaatcatccttcactggataaacgaatcactttccttttatcttttgtaatctcaacggaaagccattgactttggatggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
                   |  |        ||  | |  |||  |  ||  ||   |    |  |  ||  ||||| |  ||      | |||||  |||     | |      |   |||| |    |||| |||||||||||||||||||  | | ||| |  ||| ||||  |||||||||| || ||||||||||| ||||||||||||||||| ||||||||||| ||
------------------gtaagcaaaaccaacaacct-taattgtttttttctctctggtggggtttctcccctttgaaatt-----gtttcaact-aaacttgcttaaaaaaaacttttttcatcaatttatagGTTGAAAATGTGAAGCATTCGGCCCCAAACAAGATGGTTTTGTATTTCACAGGCGCCACCAACATACTCTACACTTTCGGCGGGCACGCCGTCACAGT

upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G03280.1 (Glycine max), 3'ss of exon 5
gtattcttcattttttctttctgggtttttcactccttacaatcatccttcactggataaacgaatcactttccttttatcttttgtaatctcaacggaaagccattgactttggat-ggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
                 |            ||  | | |   |  |   || ||||      |  |  || |||||| |  || | | | || |||        |   || |||  |        | |  |||  ||||||||||||||| |||  | | ||| | |||| ||||  |||||||||| || ||||||||||| ||||||||||||||||| ||||||||||| ||
----------------gtaagcaaaaccaacaaccttaattgttttttctctctggtg----gggtttctctcctttgaaattgtttcaactaaactttgtttaaaaaaccttgttttaaaaaaaattaatttgtagGTTGAAAATGTGACGCATTCGGCCCCAAATAAGATGGTTTTGTATTTCACAGGCGCCACCAACATACTCTACACTTTCGGCGGGCACGCCGTCACAGT

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|33407777|gb|CF213404.1|CF213404
EST:     CACTTACACTGCCTGGTATTTGACCATTGCACG-ACTGGTTCAAGGCCAG                         GTTGGAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACT
genomic: CACTTACACTGCCTGGTATTTGACCATTGCA-GCCCTGGTTCAAGGCCAGgtattcttca ... tgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACT
EST: gi|110402117|gb|EC968752.1|EC968752
EST:     CCACTTACACTGCCTGGTATTTGACCATTGCAGCCCTGGTTCAAGGCCAG                         GTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACT
genomic: CCACTTACACTGCCTGGTATTTGACCATTGCAGCCCTGGTTCAAGGCCAGgtattcttca ... tgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtaatctcaacggaaagccattgactttggatggtttttactgttttacagGTTGAAAATGTGAAGCACACAGGCCCTACTAAGCTGGTCCTGTATTTCACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
                      cattgac  putative branch site (score: 3)
                                      tttttact  putative PPT
                                      tttttactgtttta  TA-rich tract