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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG

Basic information

species Vitis vinifera
transcript Vv14s0060g02240.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 3'ss of exon 3
-gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgactta-aaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
 | || || | |  |    |   | ||   ||  ||    ||  |||  |  | || |   | |  |||| |  |      |  || |||||    ||           || ||||||| |||| ||||||||| ||||||||||| ||||| |||||||| || || ||||||||  | || ||||| |||
cgaattgtgtgttctcttttgggtcat---ttggttccaattggtttgatcgtttagtttgtgatgaatgctgtttcctcattgtttatggttgtcat-----------tgcagGATGGTGATAAGTTTTGGAGGATGCCAGAATGTTACATCCGTGGGAACACCATCAAGTATCTTCGGGTTCCTGATGAG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G095114_T01 (Zea mays), 3'ss of exon 3
---------------------------------gtatggtatttctttcaatcaatta------tgtcttatttttctttaat-ttatttttataatgacttaaaatgat--------------catcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
                                  || | | ||  |  |||   ||||      ||  || |||   ||| |  | | | | ||| | || | |   | |                | | ||||  |  | | | | |||||   |  || || ||||||| || | ||||||||| |||||||| || |||||||||||||| || |||||||||||  |||| ||||| |||
gtgaaaaatctggtgcccttgattcccattgtgataggttcttgttagcaaaagattagttaagtgcattgtttgattttgaggtgaatctgatagtaacattatggggtaccagttatttctgtctttcctgtagtaaaggtttataatggc--tggaattgcagGATGGTGACAAGTTTTGGAGGATGCCAGAGTGTTACATTCGTGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G038606_T02 (Zea mays), 3'ss of exon 3
gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
   |||| |    |||||  | | |     |    | ||    | |  |  | || |  |||   |      | | ||||  ||   | | |  ||||   |  || || |||| || || | ||||||||| |||||||| || |||||||| ||||| || |||||||||||  |||| ||||| |||
---tggt-tgaaattcaaatagtaacaatgtggggt-ctcagttatcctgctctattagcttgtga-----gtttcctgtagttatggtttatgatggc--tcgaattgcagGACGGTGACAAGTTTTGGAGGATGCCAGAGTGTTACATTCGCGGGAACACCATTAAGTATCTTCGAGTTCCTGATGAG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G37170.2 (Glycine max), 3'ss of exon 3
gtatggtatttctttcaatcaattatg-tcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
                    |||  || | |||   | | ||  ||  ||||| |  |    |||  || | ||  |     |  | || |   |||     |   ||||||||| |||||||| |||||||| ||||| ||||||||||| || || |||||||| ||||| ||  |||| ||||| |||
------------------gtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttggttatgatggaaaaggcttgatttaaattttggt---aatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTACATACGAGGCAATACAATCAAGTACCTTCGAGTACCTGATGAG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G17430.2 (Glycine max), 3'ss of exon 3
gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaa-tgggaattaa-aatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
|||  |   || ||||| |    |   |    |   |||   || |  | || | |||        |||   | |  ||  | | |   | |||| | | ||||   |||  ||||||||||||| |||||| | ||||| || |||||||||||||| ||||| |||||||| ||  | || ||||| |||
gtaacgatcttttttcactgctctccctgcattcaatctcagatattgtcttctcatgt------gtgaatgtttgttgctactta-acttacaacttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCTGAGTGCTACATTCGTGGCAATACCATTAAGTACCTTCGGGTTCCTGATGAG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G02380.1 (Glycine max), 3'ss of exon 3
gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgactta-aaatgatcatcttctgtgattcatggtcacaatg-ggaattaa-aatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
|||  |   || ||||| |   || |  ||   ||  || | |  |||| |  |     || | |  |||   |||  |   | | |   | |||||  | ||||   |||  ||||||||||||| |||||| | ||||| || ||||||||||| || ||||| || ||||| ||  | || ||||| |||
gtaacgatcttttttcact--gttctccctgcattcactctcagatattgtctt-----ctcatatgtgaatgtctgttacaactta-acttacaatttgaaattggcaattcagGATGGAGATAGATTTTGGCGTATGCCCGAGTGCTACATTCGCGGCAATACCATAAAGTACCTTCGGGTTCCTGATGAG

upper sequence: Vv14s0060g02240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ10085 (Selaginella moellendorffii), 3'ss of exon 2
gtatggtatttctttcaatcaattatgtcttatttttctttaatttatttttataatgacttaaaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
                                                                     |  ||| ||    ||| |  |    ||     ||    |  ||||||||||  |||||||||||||||| || ||||||||  | || || || || ||||||||  | || || ||||||
--------------------------------------------------------------------gttttctccttcctttctt--ttctcatccttcttctc-tccagGATGGAGACCGGTTTTGGAGAATGCCCGAGTGCTACATCAGGGGCAACACCATCAAGTATCTTCGTGTTCCAGACGAG

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|37189618|gb|CF608967.1|CF608967
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|71866659|gb|DT015714.1|DT015714
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|37189144|gb|CF608493.1|CF608493
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|110368812|gb|EC932903.1|EC932903
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|71886236|gb|DT035291.1|DT035291
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|37184974|gb|CF604327.1|CF604327
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|110400007|gb|EC966544.1|EC966544
EST:     TGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: TGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
EST: gi|37189131|gb|CF608480.1|CF608480
EST:     GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAA                         GATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA
genomic: GTGATACATGGATGAACATCCATCTGCGTGAAGTCATCTGCACTTCAAAAgtatggtatt ... taaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacttaaaatgatcatcttctgtgattcatggtcacaatgggaattaaaatgtagGATGGAGATAGGTTTTGGAGAATGCCAGAATGCTACATTCGTGGGAATACAATTAAGTATCTCAGAGTCCCTGACGAG
                                          aattaaaatgta  TA-rich tract