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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaataaagcaatcctattgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG

Basic information

species Vitis vinifera
transcript Vv15s0046g03670.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g35960.2 (Oryza sativa), 3'ss of exon 3
-------------gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcatttta--atctaataaagcaatcctattgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
              | | | | |  |||| |     |   |  | | || |     |||  |  ||| |   ||| ||   |   |  |  |   || ||  ||||||||| ||||| || ||||| || || || ||||||||||||||||| || ||||| ||||| ||  | || |||   || ||||| || || || ||||
gtgagcgcgctctctcgatgttgcagtggcgatggttgattcatgagctcaaggtgtttgcgtgtttgattgtctgatgcggtggtgttcgtctgtttttg-ccagGTTCTAATTGACAATATCAAGGATTTCGCGCCGATAATATACACTCCGACTGTTGGGTTGGTCTGCGAGAATTACAGTGGCTTGTTCAGGCGCCCCCGTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G085747_T04 (Zea mays), 3'ss of exon 3
--------gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaa-----taaagcaatcctat-tgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
        |||||||      | |||  |   |      |||  ||        | |    | ||| |       | |     |  |||  | | |  |   ||||| || ||||| || ||||| || ||||| |||||||||||||||||||| ||||| ||||| ||| |||| |||   ||  |||| ||||| || ||||
gtgagcccgtaggttgcagtatcgtgtttgggaaaaaaaaatgatacaatggcgatgtgcctgaatttggagtgctgacatggtaatatgcgctcttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACTGTTGGCTTGGTCTGTGAAAATTACAGCGGTCTGTTCAGACGACCCCGTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G08110.1 (Glycine max), 3'ss of exon 3
---------------------------gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaataaagcaatcctat-------tgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
                            |  ||||    |       | || | |  ||     |    ||  ||    | | ||||  || |  | || |||       |  ||| || | ||||||||||||||||| || ||||| ||||| || |||||||| ||||| ||||||||||| ||||||||||| || || ||||| ||||| ||||||||||
gtgagttagacgatgaagtttgcttttttgtgtttttgagctaaattttcttgttaatataagaatatgatcaaatttctgttatctgttatatgattcttatgtcgttatattttttttttcagGTTCTTATTGATAATATTAAAGAGTTTGCTCCAATAATATATACTCCTACAGTTGGATTAGTGTGTCAAAATTATTCAGGGTTATTTAGGCGTCCACGTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G01680.1 (Glycine max), 3'ss of exon 4
------------gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaataa--agcaatcctattg-atttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
             |    || |  || |||  |   ||||     |  | |   || |||| || |  ||| |||       |||    |   |||| || ||||||||||||||||||| || ||||| ||||| || |||||||| || || ||||||||||| ||||||||||| || || ||||| ||||| ||||||||||
gtgagttagatgatgaagtttgctgttgtgtttttgagctaagttttcttgttaatgtaagaatat-gatcaaatttctgttaatgtcgtcatattttttttccagGTTCTTATTGATAATATTAAAGAGTTTGCTCCAATAATATATACCCCTACAGTTGGATTAGTGTGTCAAAATTATTCCGGGTTATTTAGGCGTCCACGTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G39870.1 (Glycine max), 3'ss of exon 3
gtaggtttg-gtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaataaagcaatcctattgatttcttat-----ccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
||  |||   |  || | || | |||    |||    ||   |||| ||    | | || | ||      ||  | || |  | ||||      |||||||||||||||||||||||||| ||||| || ||||| || || ||||||||||| || |||||| |||| || || ||||| |||||||| |||||||
gtgagttgatgaagttgggcttgctaat--gtatggatacatcattaaaattatattatgtgattt--ttatgttgtttaccttttatgcccttcagGTTCTTATTGATAACATCAAAGAGTTTGCTCCAATAATCTATACCCCCACAGTTGGGTTAGTGTGTGAAAATTATTCAGGGTTATTTAGACGCCCACGTG

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G46340.1 (Glycine max), 3'ss of exon 3
-gtaggtttggtggtggtgcatactagctggtaatcttagcccatt-taagcattttaatctaataaagca-atcctattgatttcttat-----ccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
 ||  ||| |  | ||  |    ||  ||  |  | | |   |||  |||  ||| | ||    | |     ||  | || |  | ||||      |||||||||||||||||||||||||| ||||| || ||||| || ||||| |||||||| || |||||| |||| || || ||||| |||||||| || ||| 
agtgagtt-gacgatgaagttggctttctaatg-tatgaatacatcataaaaattatcattatgtgatttttatgttgtttaccttttatgctcttcaGGTTCTTATTGATAACATCAAAGAGTTTGCTCCAATAATCTATACTCCTACAGTTGGGTTAGTGTGTGAAAATTATTCCGGGTTATTTAGACGCCCGCGT-

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G00570.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaataaagcaatcctattgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
            |||   | |  | |||   |||  |  ||||  |   ||  |   ||| | | | ||     | | || |  | | |||||||||||||||||||||||||| ||||| || || ||||||||||| || |||||| | || ||||| ||||| || || |||| |||| | ||| | |
------------gtgagtctttttggctctaaatactgtcccacattgacacatc--tctgagacatca---taactcatcttctctgcagGTTCTTATTGATAACATCAAAGATTTTGCCCCCATTATATACACTCCTACGGTTGGACTTGTTTGTCAGAACTATTCTGGTTTGTATAGAAGACCAAGAG

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|110711032|gb|EE087769.1|EE087769
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110685703|gb|EE062665.1|EE062665
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110711784|gb|EE088657.1|EE088657
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110710958|gb|EE087607.1|EE087607
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110698263|gb|EE075598.1|EE075598
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110711356|gb|EE087746.1|EE087746
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110699671|gb|EE076873.1|EE076873
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110719431|gb|EE094555.1|EE094555
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
EST: gi|110712870|gb|EE088292.1|EE088292
EST:     GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGG                         GTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA
genomic: GGAGGATCTTAAATAGACTACATGACAGGAATGAGACACTGTACTACCGGgtaggtttgg ... tcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagcccatttaagcattttaatctaataaagcaatcctattgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
                                     tattgat  putative branch site (score: 3)
                                           tttcttatcc  CT-rich tract
      atttaagcattttaat  TA-rich tract