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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgttgactacaaaagcctttgactagcctttgttgcttttagttgtttttcaccatctggttttgttactgtttcctttgtgccttatattaaggaatttaatctctaaccgttagtttatgatgactattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAACACCGTTAAGATTTGGTCAATGAAAG

Basic information

species Vitis vinifera
transcript Vv19s0014g05210.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g05210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G17110.1 (Glycine max), 3'ss of exon 5
gtaggtgttgactacaaaagcctttgactagcctttgttgcttttagttgtttttcaccatctggttttgttactgtttcctttgtgccttatattaaggaatttaatctctaaccgttagtttatgatgactattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAACACCGTTAAGATTTGGTCAATGAAAG
             |    |  |||   ||    ||| |  |  ||  | ||  || |  | ||  | ||| |  |  |     |  |  ||| |||  |||  |||  |   ||| |  | ||| || ||  || ||||||| |||||||| |||||||||||| | ||||| |||||||| ||||| || || || || || ||||| ||||| |
----------gtaagtgtattcttcacctgatgtttctccccctttttcgtgcttaattacctattcttggtgataata----taagatttagattttggagattagccc--aactg--actttttgttgcttactgtagGATTTTCACCCATCAGACATATATAGTATTGCTAGTTGTGGCATGGATAATACTGTAAAAATATGGTCTATGAAGG

upper sequence: Vv19s0014g05210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G20740.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaggtgttgactacaaaagcctttgactagcctttgttgcttttagttgtttttcaccatctggttttgttactgtttcctttgtgccttatattaaggaatttaatctctaaccgttagtttatgatgactattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAACACCGTTAAGATTTGGTCAATGAAAG
                                    ||         |||||||     ||||  ||  |||| | ||||     |    ||||   |  |  ||||     |||| |    ||||  |||  ||||||||| ||||| || || || || || ||| |||| |||||||||||||||| |||  |||| || |||||||||||||
------------------------------------gtgagccaatattgtttt-----atctaattcagttagt-tttctacaataatatatagagacaatgttaagggg-aaccatc---ttattttgaaaattgtagGATTTTCATCCGTCTGATATTTACCGCTTTGCTAGTTGTGGTATGGACACCACTATTAAAATATGGTCAATGAAAG
















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|71864778|gb|DT013833.1|DT013833
EST:     TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
EST: gi|161719190|gb|FC065436.1|FC065436
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
EST: gi|351053554|gb|FQ459301.1|FQ459301
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
EST: gi|351036699|gb|FQ457412.1|FQ457412
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
EST: gi|351043856|gb|FQ452650.1|FQ452650
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTAATGGACAA
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTA-TGGACAA
EST: gi|352791431|gb|FQ481010.1|FQ481010
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
EST: gi|294965480|gb|GW839051.1|GW839051
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACNTTCACCCTTCAAACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
EST: gi|351033874|gb|FQ447912.1|FQ447912
EST:     TTTTGATATTTGCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTG                         GACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC
genomic: TTTTGATATTTTCTGGAGCTGGGGGTCATCGCAATGAAGTCTTGAGTGTGgtaggtgttg ... actattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccttatattaaggaatttaatctctaaccgttagtttatgatgactattgtagGACTTTCACCCTTCAGACATATATCGCATTGCGAGTTGTGGTATGGACAACACCGTTAAGATTTGGTCAATGAAAG
                       ctctaac  putative branch site (score: 2)
     tatattaaggaattta  TA-rich tract