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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataccttggttgaaatctgtttgtaggacaaacaagattttatttactgtgatttcttttctgatcgacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG

Basic information

species Vitis vinifera
transcript Vv14s0068g01280.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g51530.1 (Oryza sativa), 3'ss of exon 5
-------------------------------------------gtataccttggttgaaatctgtttgtaggacaaa--caagattttatttactgtgatttcttttctgatcgacctctttgcttgcttca--gCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
                                              |   ||  || |||    |  | |   | |    | | ||| || |  ||| | | |   ||| ||     | ||| | | ||  |  || |||| ||||||||||||||||| || ||||| |||||||| ||  |  | ||||||||| |||||||||| |||||| ||||||| ||||| ||||| 
gtagattgcatgccactgagtttttggctttaagccaattctttcttgttttatttcaaaggactcagaaatgcgagggtatggtttcatcttttgttagt-caactctaattagtttgttttccttctgtatagCTTAGCAGTTCGTGATCTTTCCAATCTGGTAAAACCAGAGGATATGGTCACATCAGAACATCTAGTGACACTCCTTGCAGTTGTTCCTAAGTACTCTCAA

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G128995_T01 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------gtataccttggttgaaatctgtttgtaggacaaacaag-------attttatttactgtgatttcttttctgatc-----gacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
                                                                      || ||   |    | ||   |   | || |   |   |       ||||||| |  ||   || || | || ||      | ||| ||    ||    ||| |||| ||||||||||||||||| || ||||| || ||||| || ||  |||| |||||| | ||||||||||||||||||||||||||||| || || 
gtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCACCTCGGAACATCTCGTGACACTTCTTGCAATTGTTCCCAAGTACTCCCAA

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G128995_T05 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------gtataccttggttgaaatctgtttgtaggacaaacaag-------attttatttactgtgatttcttttctgatc-----gacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG-----
                                                                      || ||   |    | ||   |   | || |   |   |       ||||||| |  ||   || || | || ||      | ||| ||    ||    ||| |||| ||||||||||||||||| || ||||| || ||||| || ||  |||| |||||| | ||||||||||||||||||||||||||||| || ||      
gtaaattgcgctgacatactttgtgtgttcagactctagaggaagtgcttgattccaggactttttccttgtttattgtaaaaggaacaggagagcagaaatgaatggcttactcattttatctgttgcctttcctatactaattagtttggccttttattgtgtgaaagcttagCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCACCTCGGAACATCTCGTGACACTTCTTGCAATTGTTCCCAAGTACTCCCAAAAAGA

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G144372_T01 (Zea mays), 3'ss of exon 5
--------------------------------------------------------------------------gtataccttggtt-gaaatctgtttgtaggacaaacaag-------attttatttactgtgatttcttttctgatcgacc--tctttgcttgcttca--gCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
                                                                          || ||  ||     | ||   |   |  | ||      |       |||| || |  ||   || || | || ||       |||||  |||  | |  || |||| ||||||||||||||||| || ||||| || ||||| || ||  |||| |||||| | ||||||||||||||||| ||||||||||| || || 
gtaaattgcattgtcatacttttgtgcagaccctggaggaactgtttgatgccaagaccattacgttttcccttgtttattttaaaaaggaacaggagagcggaactggatggtatatccatttcatctgttgct-ttcctgtactaattagtttgtcttttattgtgtgaaagCTTAGCGGTTCGTGATCTTTCCAATCTGGTAAAACCGGAGGATATGATCACCTCGGAACATCTTGTGACACTTCTTGCAATCGTTCCCAAGTACTCCCAA

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G177912_T02 (Zea mays), 3'ss of exon 5
---------gtataccttggttgaaatctgtttgtaggacaaa-caagatt--ttatttactgtgatttcttttctgatcgacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
          | |   ||  |  ||| |   | | | | || |   || |    |  ||  ||| ||    |   |  |     | ||    ||   |||| |||| ||||||||||||||||| || ||||| |||||||| ||  |   |||||| ||| |||| ||||||||||| |||||||| ||||| || || 
tcaattcctttgttgttttatgcaaagcaagtaggaaggcagagttaggtcaactgcttcttgttatgcactgattagtttgtgttttcttctgtgacagCTTAGCAGTTCGTGATCTTTCCAATCTGGTAAAACCAGAGGATATGGTCTGCTCAGAGCATCTAGTAACACTTCTTGCTATTGTTCCAAAGTACTCCCAA

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G07260.1 (Glycine max), 3'ss of exon 5
gtataccttggttgaaatctgtttgtaggacaaacaagatttt---atttactgtg-atttcttttctgatc-----gacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
         |  ||||   | ||| | | |||| || || |||   || || |  | |||||||  ||||       ||||| ||||| || || ||| ||||||| ||||||||||||||| | ||||| || ||||| |||||  | |||||| |||||   || |||||||||||||||||||||||||| |||
---------gtgtgaatgttatttattgaacaatcatgactttttaatataataagtatttcttagctgactttaatgacctatttgcctgttttagCTTAGCTGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACCACCCTTCTTGCAATTGTTCCCAAGTATTCACAG

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G26220.1 (Glycine max), 3'ss of exon 5
gtataccttggttgaaatctgtttgtaggacaaacaagatttt--atttactgtg-atttcttttctgatc-----gacctctttgcttgcttc-agCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
         |  ||||   | ||| | |  ||| || || |||  || || |    |||||||  ||||       ||||| ||||| || ||  ||| ||||||| |||||||||||| || | ||||| || ||||| |||||  | |||||| |||||   || ||||| |||||||||||||||||||| |||
---------gtgtgaatgttatttattgaccaatcatgacttttaatataatacatatttcttagctgacttaaatgacctatttgcctgtttttagCTTAGCTGTCCGTGATCTTTCCGACTTGGTAAAACCTGAGGATATTATAACTTCAGAAAATTTAACTACCCTTCTGGCAATTGTTCCCAAGTATTCACAG

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G05470.1 (Glycine max), 3'ss of exon 5
gtataccttggttgaaatctgtttgtaggacaaacaagatttt---atttactgtgatttcttttctgatcgacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
          ||       ||||  || |||    |   ||||   || || | || | | |||  |    || ||  |||  |  |||||| |||| || ||||||||||||||| | ||||| || ||||||||| |  | |||||| |||||   || || |||||||||||| |||||||||| |||
----------gtgtgtggatgttgttatgactggtatagttttcaaatatagtatgttctatttctttgctgatctacttgactatttcagCTTAGCAGTCCGTGATCTTTCCAACTTGGTAAAACCTGAGGACATTGTAACTTCAGAAAATTTAACTACCCTCCTTGCAATTGTTTCCAAGTATTCACAG

upper sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G27360.1 (Glycine max), 3'ss of exon 5
gtataccttggttgaaatctgtttgtaggacaaacaagatttt---atttactgtgatttcttttctgatcgacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
          |||      ||||  || |||        ||||   || || | |  | | |||  |    |||||  |||  |  |||||| |||| || ||||||||||||||| | ||||| || || |||||| |  | |||||| |||||   || || |||||||||||| |||||||||| |||
----------gtttgtggatgttgttatgactggtctagttttctaatatagtatattctttttctttgctgacctacttgactatttcagCTTAGCAGTCCGTGATCTTTCCAACTTGGTAAAACCTGAAGACATTGTAACTTCAGAAAATTTAACTACCCTCCTTGCAATTGTTTCCAAGTATTCACAG

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|351031454|gb|FQ446657.1|FQ446657
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|349830231|gb|FQ420491.1|FQ420491
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|351024893|gb|FQ433310.1|FQ433310
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|71881861|gb|DT030916.1|DT030916
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|110699022|gb|EE077184.1|EE077184
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|110693329|gb|EE069475.1|EE069475
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|349833078|gb|FQ416456.1|FQ416456
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|71882447|gb|DT031502.1|DT031502
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|27581998|gb|CB004693.1|CB004693
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|161716182|gb|FC069494.1|FC069494
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTTCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|351013608|gb|FQ429749.1|FQ429749
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|71883798|gb|DT032853.1|DT032853
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|351020303|gb|FQ445910.1|FQ445910
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|71887796|gb|DT036851.1|DT036851
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|110693330|gb|EE069469.1|EE069469
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|110700866|gb|EE077894.1|EE077894
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
EST: gi|349830278|gb|FQ420538.1|FQ420538
EST:     AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAG                         CCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC
genomic: AATAATGTGCGCAGTCAGCTCAATGCTATTAATCGAAAGCAAAGTGGAAGgtataccttg ... cttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagattttatttactgtgatttcttttctgatcgacctctttgcttgcttcagCCTAGCTGTTCGTGATCTTTCCAACCTAGTAAAGCCAGAGGACATTATTGCCTCAGAACATTTAGTGACACTTCTTGCAATTGTTCCCAAGTATTCTCAG
                           ttctgat  putative branch site (score: 3)
                                     cctctttgcttgcttc  putative PPT
     attttatttactgt  TA-rich tract