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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCTGCAAGACTTCCTGGATTTCATGTTTGTGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttttttgcatattttgctgaattctatttattagatatatttggattgtttgaagcaaaatcaatctcttttagtaatatatgaatgtgtttgcacaaaaatcaccaaattacagaattgccttaatagcacgttttcactaaccacctatctttggattgcag

Basic information

species Vitis vinifera
transcript Vv08s0007g03610.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g03610.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os09g39380.1 (Oryza sativa), 5'ss of exon 5
GAGCTGCAAGACTTCCTGGATTTCATGTTTGTGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaa----tacttttttgcatattttgctgaattctatttattagatatatttggattgtttgaagcaaaatcaatctcttttagtaatatatgaatgtgtttgcacaaaaatcaccaaattacagaattgccttaatagcacgttttcactaaccacctatctttggattgcag----------
  ||||||||||| || ||||||||||| ||||| || || ||||||||||| ||| | || || |||||   |||||||||||     | |  |||||| |  |   |   ||  | |||    ||| ||||||   |  |||| |  || | |   ||  || | |||   |   | || |  |   |     |  |  | |   |||    ||  |      || | |  |  | |||   |   |||||||           
ATGCTGCAAGACTCCCAGGATTTCATGTGTGTGTCGGCAGTGGAGGAGAGAGGCTTTTGCCCGAATGGTACTCAGAGAAAGgtattgactgccattttgctttctgcaccatatcatcttttaatgatttatttgtcattgttgaggttaa-ttaccatcaatttgaaattcttatttttgctcaccttagtggaaatacgtcatgtaatgatttttttt---tattctaagcatactcctgaatcatgattgcatctgttggcag

upper sequence: Vv08s0007g03610.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G07820.1 (Glycine max), 5'ss of exon 4
GAGCTGCAAGACTTCCTGGATTTCATGTTTGTGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttttttgcatattttgctgaattctatttattagatatatttggattgtttgaagcaaaatcaatctcttttagtaatatatgaatgtgtttgcacaaaaatcaccaaattacagaattgccttaatagcacgttttcactaaccacctatctttggattgcag
   |||| ||||||||||| || ||||| ||||||||||| |||||||| ||  | |||||||||||||| | |||||||||| |   |   || ||       |    || || ||      |||   |||||  | | | |   ||| | |   || || || ||||| ||   ||      |||| | |    |  || | ||   ||||| | ||  |||  | ||   |  ||    || |||||||
CCCCTGCTAGACTTCCTGGGTTCCATGTCTGTGTTGGAAGTGGAGGAGAAAGGTTGCTTCCTGAGTGGTACACAGAGAAAGgtgactttggctttcac---ccacattgttttagttcagcattattactggatattgttaggatcaat-agttgattatattattatatcaa---gtgaaaggaaaagtaaatggaaaactggat---cttaacaacaattttctaatacgaagttactgatg-attgcag

upper sequence: Vv08s0007g03610.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA0169S00210.1 (Glycine max), 5'ss of exon 4
GAGCTGCAAGACTTCCTGGATTTCATGTTTGTGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttttttgcatattttgctgaattctatttattagatatatttggattgtttgaagcaaaatcaatctcttttagtaatatatgaatgtgtttgcacaaaaatcaccaaattacagaattg-ccttaatagcacgttttcactaaccacctatct-ttggattgcag-------
   |||| ||||||||||| || ||||| ||||||||||| ||||| || ||  | |||||||||||||| | |||||||||| |   |   || ||       |    || || ||      |||   |||||  | | | | |  |  | |   || || || ||||| ||       |   ||  |  |  | ||   | ||| |  ||| | | ||  |||  | ||   || ||    ||| | ||  |       
CCCCTGCTAGACTTCCTGGGTTCCATGTCTGTGTTGGAAGTGGAGGGGAAAGGTTGCTTCCTGAGTGGTACACAGAGAAAGgtgactttggctttcac---ccacattgttttagttcagcattattactggatattgttaggaatcaatagttgattatattattatatcaa-------gtgaaaggaaaagtagatggaaaaatggatcttcacaacaattttctaatatgaacttacaaattgaactgatgattgcag

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|71884694|gb|DT033749.1|DT033749
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71857656|gb|DT006711.1|DT006711
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71859550|gb|DT008605.1|DT008605
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|30255667|gb|CB971799.1|CB971799
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTT
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTT
EST: gi|110723311|gb|EE100477.1|EE100477
EST:     AGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: AGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71856545|gb|DT005600.1|DT005600
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71872394|gb|DT021449.1|DT021449
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|161718345|gb|FC064769.1|FC064769
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTTAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|110380711|gb|EC945999.1|EC945999
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|110728455|gb|EE104038.1|EE104038
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|161707787|gb|FC056440.1|FC056440
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71856042|gb|DT005097.1|DT005097
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|37190404|gb|CF609753.1|CF609753
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71859937|gb|DT008992.1|DT008992
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71858668|gb|DT007723.1|DT007723
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|161713126|gb|FC062484.1|FC062484
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71860428|gb|DT009483.1|DT009483
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71861795|gb|DT010850.1|DT010850
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71887849|gb|DT036904.1|DT036904
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71862830|gb|DT011885.1|DT011885
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|351014525|gb|FQ437527.1|FQ437527
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|161711333|gb|FC060384.1|FC060384
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|349827863|gb|FQ422731.1|FQ422731
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71860964|gb|DT010019.1|DT010019
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71863493|gb|DT012548.1|DT012548
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
EST: gi|71857725|gb|DT006780.1|DT006780
EST:     TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAG                         GTATAGAATTGATCCTTGGTACAGAAATAGTGAAAGCAGATCTTGCATCCA
genomic: TGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttt ... tggattgcagGTATAGAATTGATCCTTAGTACAGAAATAGTGAAAGCAGATCTTGCATCCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGCTGCAAGACTTCCTGGATTTCATGTTTGTGTTGGAAGCGGAGGAGAGAGACTTCTTCCTGAGTGGTATAAAGAGAAAGgtaatacttttttgcatattttgctgaattctatttattagatatatttggattgtttgaagcaaaatcaatctcttttagtaatatatgaatgtgtttgcacaaaaatcaccaaattacagaattgccttaatagcacgttttcactaaccacctatctttggattgcag

- - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA