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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtattgattcgaaaacctgcgttttctgcttcaatttggatttgtttctgatcatttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA

Basic information

species Vitis vinifera
transcript Vv19s0014g03290.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G35550.1 (Glycine max), 3'ss of exon 1
gtgagtattgattcgaaaacctgcgtt--ttctgcttcaatttggat---ttgtttctgatca-------tttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
|| | |||  | |||   |||    |   || |  || || ||   |   |||||    ||         || ||| | |  || |||||||||||| || || || || |||||||||||||||||||| ||||||||  |||| ||||| || |||||  ||||||| || || |||||||| || ||
gtaattatcaaatcgctcacccatctccatttttttttaagttaattactttgttctaaattgaatagatttgattgattaattttgcagGTAAAGCGATTTTCGGTGAAAAAGAGTGGTACTTTTTCAGCCCCAGAGACAGGAAATACCCGAACGGGTCTCGACCCAACAGAGTAGCTGGGTCGGGTTA

upper sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G22880.1 (Glycine max), 3'ss of exon 1
---------------------gtgagtattgattcgaaaacctgcgttttctgcttcaatttggatttgtttctgatc--atttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
                      |  | |      | ||||   |   |    |  | | | |   | ||||| | ||   || |  ||| | ||  || |||||| ||    ||||||||||| ||||||||||| |||||||| |||||  |||||||||| ||||| ||  |||| || || ||||| || ||||||||
ttataaccttggttaatgtctatttgcacatgcacaaaaatgaggactactagtattattattattatgtttttaattgaatgtggtta-tggtggtgtagGTAAGGCAGCGTTTGGAGAGAAGGAGTGGTACTTCTTCAGTCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTTGCGGGTTCTGGGTA

upper sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G35000.1 (Glycine max), 3'ss of exon 1
------gtgagtattgattcgaaaacctgcgttttctgcttcaatttg------gatttgtttctgatc--atttatttacttg------ttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
            | | | ||    | || | |||  |  || ||  ||        ||||||    ||   ||  ||||  |||      || ||||||||| || || || || ||||||||||||||||||||||| || |||||  |||| ||||| || |||||| ||||||| || || || ||||| || ||
gtaattcaacccactcactcacccatctccatttatttttttaaaatgttaattactttgttctgaattgaataaatttgattgattaatttttgcagGTAAGGCGATTTTCGGTGAGAAAGAGTGGTACTTTTTCAGCCCTAGAGACAGGAAATACCCTAACGGGTCCCGACCCAACAGAGTAGCCGGGTCGGGTTA

upper sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G38410.1 (Glycine max), 3'ss of exon 1
--------------------gtgagtattgattcgaaaacctgcgttttc-tgcttcaatttggatt-tgtttctgatc--atttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
                    |||||  |  |||| ||| | ||  |  |  |  |   ||| | ||| ||||| | ||   || |  ||| | ||  ||||||||| ||  | ||||||||||| |||||||||||||| || || |||||  |||||||||| ||||| ||  |||| || || || || || ||||||||
atataattgcaattgtgatcgtgagcgt-aattcaaaaccttggttaatgatattgttattagtattatgtttttaattgaatgtggtta-tggtggtgcagGTAAGGCAGTGTTTGGAGAGAAGGAGTGGTACTTTTTTAGCCCAAGAGACAGGAAGTACCCGAATGGTTCACGACCAAACAGAGTCGCGGGTTCTGGGTA

upper sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S140_93V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------gtgagtattgattcgaaaacctgcgttttctgcttcaatttggatttgtttctgatcatttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
                      |    || | |||  ||   ||| ||        ||| |    |      |  ||  ||   |  |  | | ||||||| ||||| ||||| ||||||| ||| ||||| || ||||| ||  ||||  | ||||||||||||||  ||||||||||  | |  ||||  ||||||||
taagcttctcgcaaattgaacggaagttagttatttaaacttctgtgtccatgtgatcattaaacaccgaggttggagtataattaaaactttgctgcagGAAAAGCAATATTCGGAGAGAGAGAATGGTATTTCTTCAGCCCACGAGACAGAAAGTACCCAAATGGAGCCAGACCCAACCGAGCAGCTGCCTCTGGGTA

upper sequence: Vv19s0014g03290.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S164_33V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------gtgagtattgattcgaaaacctgcgttttctgcttca-atttggatttgtttctgatcatttatttact-tgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
                       | |   ||||| |  || |  |   | || |    || | || |||  | ||   |   ||  ||| || ||   |||||| || || || || |||||   ||||||||| ||||||||||| || || |||||||||||||||||| |  |||||||  ||| ||| |  || || | 
ccaggcggtgttgcgatatttctgggtagattgagtttaagatgtatttattgtagcacatacttcgataagatt---aatgttggtttgctctgacatgcagGGAAGGCAATTTTAGGAGAAGGAGAGTGGTATTTTTTCAGTCCAAGGGACCGGAAGTACCCAAATGGGGCTCGACCCAACCGGGCTGCAGCTTCAGGATT

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|161715700|gb|FC067804.1|FC067804
EST:     GATAATTGGCGAAATCGATCTGTACAAGTTTGACCCATGGGTTCTTCCCA                         GTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATC
genomic: GATAATTGGCGAAATCGATCTGTACAAGTTTGACCCATGGGTTCTTCCCAgtgagtattg ... tgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATC
EST: gi|30129808|gb|CB915147.1|CB915147
EST:     GATAATTGGCGAAATCGATCTGTACAAGTTTGACCCATGGGTTCTTCCCA                         GTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATC
genomic: GATAATTGGCGAAATCGATCTGTACAAGTTTGACCCATGGGTTCTTCCCAgtgagtattg ... tgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttttctgcttcaatttggatttgtttctgatcatttatttacttgttctgcagGTAAAGCTATATTTGGAGAGAAAGAGTGGTACTTTTTCAGTCCCAGAGATCGGAAGTACCCAAATGGGTCCAGACCCAATAGGGTTGCTGGGTCTGGGTA
                          ttctgat  putative branch site (score: 3)
                                           cttgttct  putative PPT
                               atcatttatttactt  TA-rich tract