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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAATAAGTTACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatccatatctttacgatatgcctgttattttcttccacaaagaacaatttttcatgctgtcattttctggttttctgtgccttatcag

Basic information

species Vitis vinifera
transcript Vv14s0060g00600.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G22600.3 (Glycine max), 5'ss of exon 4
ACAATAAGTTACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatccatatc--------tttacgatatgcctgttattttcttccacaa-agaacaatttttcatgctgtcattttctggttttctgtgccttatcag
|| ||||| |||||||| ||||| ||||| ||||||||||||||||||||||| || || |||| | |   ||||        |  | || |||| | |  ||  | |   ||| | ||      |   |  || || || |||   ||  |||   |   ||
ACTATAAGCTACATGGCAGAGCGTGTTGTAGGGCATGGATCATTTGGAGTTGTCTTCCAGgtaaaattatgtatccagttgactaaatgagatgcatttctttagccttttcaacacaagtgacataattattgccaatt-ctgaggttgggtgtgattgtag

upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G28530.2 (Glycine max), 5'ss of exon 4
ACAATAAGTTACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatccatat---ctttacgatatgcctgttattttcttccacaa-agaacaatttttcatgctgtcatt-ttctggttttctgtgccttatcag
|| ||||| |||||||| ||||| ||||| ||||||||||||||||||||||| || || |||| | | |   |   ||  | || |||| | |  ||  | |   ||| | ||      |   |  || | |  |||||   ||  |||   |   ||
ACTATAAGCTACATGGCAGAGCGTGTTGTAGGGCATGGATCATTTGGAGTTGTCTTCCAGgtaaaatttccagttgactaaaagagatgcatttctttagccttttcaacacaagtgacataattattgccttagttctgacattgggtgtgattgtag

upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA03G38850.2 (Glycine max), 5'ss of exon 4
ACAATAAGTTACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatccatat---ctttacgatatgcctgttattttcttccacaaagaacaatttttcatgctgtcattttctggttttctgtgccttatcag
|| ||||| || ||||| ||| |  |||||||||||||||||||||| ||||| || |||||| |||| | |||   ||  | ||| |    ||| |   ||| || | ||| | |  | | |||||| ||||||    |  ||   |         
ACTATAAGCTATATGGCAGAGAGGATTGTTGGGCATGGATCATTTGGGGTTGTCTTCCAAgtatgaattcttatccactgaatgatgtattagtt-tagcctttcaaacagagcgacatatgatgctgacatttttgtataatcgcag---------

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|30325615|gb|CD008877.1|CD008877
EST:     ATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|32270380|gb|CD719539.1|CD719539
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|32270854|gb|CD720013.1|CD720013
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71862026|gb|DT011081.1|DT011081
EST:     CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|46917569|gb|CN546898.1|CN546898
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|156737184|gb|EV241305.1|EV241305
EST:     GCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: GCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|161714435|gb|FC064434.1|FC064434
EST:     GGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: GGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30326170|gb|CD009432.1|CD009432
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71858122|gb|DT007177.1|DT007177
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|161718942|gb|FC067353.1|FC067353
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|110712249|gb|EE089658.1|EE089658
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30256245|gb|CB972088.1|CB972088
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|110689423|gb|EE065633.1|EE065633
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30327244|gb|CD010506.1|CD010506
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|161713248|gb|FC063076.1|FC063076
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAACAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|161718839|gb|FC065074.1|FC065074
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|33405711|gb|CF211338.1|CF211338
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71858672|gb|DT007727.1|DT007727
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|32247650|gb|CD713469.1|CD713469
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30327832|gb|CD011094.1|CD011094
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71861763|gb|DT010818.1|DT010818
EST:     CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30327902|gb|CD011164.1|CD011164
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30325367|gb|CD008629.1|CD008629
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30325513|gb|CD008775.1|CD008775
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|110687881|gb|EE065793.1|EE065793
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|34547149|gb|CF515381.1|CF515381
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30325747|gb|CD009009.1|CD009009
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30325454|gb|CD008716.1|CD008716
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71859213|gb|DT008268.1|DT008268
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCGA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71864551|gb|DT013606.1|DT013606
EST:     CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|71864720|gb|DT013775.1|DT013775
EST:     CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: CTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
EST: gi|30323811|gb|CD007073.1|CD007073
EST:     ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAA                         GCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA
genomic: ACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatcc ... gccttatcagGCAAAATGCTTAGAGACCGGTGAAACTGTGGCTATAAAGAAGGTTCTTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAATAAGTTACATGGCTGAGCGCGTTGTTGGGCATGGATCATTTGGAGTTGTTTTTCAAgtaagaatccatatctttacgatatgcctgttattttcttccacaaagaacaatttttcatgctgtcattttctggttttctgtgccttatcag

- - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - -  TTGGAG