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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTGTTACCATACAGGAAACAAGGGGTGTTCCTGGGGAAATGACTGTTGAGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcctccctgtttttgataccaagttgttggtttgtctttgctaatattgcagtttccatttgcataatgacattgcttaacattagatcattg...

Basic information

species Vitis vinifera
transcript Vv14s0081g00440.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0081g00440.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA03G40840.1 (Glycine max), 5'ss of exon 6
AACTGTTACCATACAGGAAACAAGGGGTGTTCCTGGGGAAATGACTGTTGAGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcctccctgtttttgataccaagttgttggtttgtc--tttgcta-atattgcagtttccatttg----cataatgacattgcttaacattagatcattg
 |||||||||||||| ||| |||| |||||||||||||| ||||| ||||| || | |||||||||||| ||||||||| |||| |||||||| ||||||| | |  |  ||   |||||  | | ||| |||     || ||  |  |  | ||  ||||  ||   |||      |  |||| |||  | |   | | ||     
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaatactgatcttggttttcta-atcaatttgaaatcttttcaatccgtaagatgctgcatgttttttttaatcttaatatgaaattattcagt-taaaat-----

upper sequence: Vv14s0081g00440.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA19G43540.1 (Glycine max), 5'ss of exon 6
AACTGTTACCATACAGGAAACAAGGGGTGTTCCTGGGGAAATGACTGTTGAGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcctccctgtttttgataccaagttgttggtttgtctttgctaatattgcagt-ttccatttgcataatgacattgcttaacattagatcattg
 |||||||||||||| ||| |||| |||||||||||||| ||||| ||||| || | |||||||||||| ||||||||| |||| |||||||| ||||||| | |  |  ||   |||||| | | ||| ||      || ||  | || |   ||| |  | || |||  ||| |       ||  |  | |  |  || 
TACTGTTACCATACAAGAAGCAAGAGGTGTTCCTGGGGAGATGACAGTTGAAATCAGTGGAACTGCTTCTCAAGTCCAAACAGCACAGCAACTAATACAGgtaattctgatcttggtttttta-atcaatttaaaaacttttcaatccttaagatgctgcatgccttttaaatattttttcaactgtagttaaacttgttt
















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|351045277|gb|FQ451725.1|FQ451725
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|34364371|gb|CF405956.1|CF405956
EST:     AGATCAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCCCCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|351041105|gb|FQ444082.1|FQ444082
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110379289|gb|EC944474.1|EC944474
EST:     AGATCAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|351012327|gb|FQ430012.1|FQ430012
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|27584908|gb|CB007603.1|CB007603
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|351025530|gb|FQ435223.1|FQ435223
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|28962647|gb|CB341680.1|CB341680
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|349819655|gb|FQ413539.1|FQ413539
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110374725|gb|EC939649.1|EC939649
EST:     AGATCAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110407487|gb|EC973089.1|EC973089
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|27584403|gb|CB007098.1|CB007098
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|32249112|gb|CD714931.1|CD714931
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|351041193|gb|FQ444170.1|FQ444170
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCATCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|352795574|gb|FQ480162.1|FQ480162
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|33404537|gb|CF210164.1|CF210164
EST:     AGATCAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCCCCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|28962576|gb|CB341609.1|CB341609
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110717203|gb|EE092852.1|EE092852
EST:     ATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: ATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110386025|gb|EC950595.1|EC950595
EST:     AGATCAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|27583216|gb|CB005911.1|CB005911
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|351023807|gb|FQ448358.1|FQ448358
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|30323483|gb|CD006745.1|CD006745
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110698109|gb|EE075743.1|EE075743
EST:     AGATTAATGGAACTGCTTNCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AAATTTATGGCTGAAGCTGC
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGC
EST: gi|110389550|gb|EC954400.1|EC954400
EST:     AGATCAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|349815860|gb|FQ401016.1|FQ401016
EST:     AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
EST: gi|110718620|gb|EE095661.1|EE095661
EST:     AGATTAATGGAACTGCTTNCCAAGTCCAAGCAGCTCAGCAACTGATACAG                         AATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT
genomic: AGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcc ... tgtgttgcagAATTTTATGGCTGAAGCTGCTGCACCAGCACAGGCCCAAGCTGGTGGATCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTGTTACCATACAGGAAACAAGGGGTGTTCCTGGGGAAATGACTGTTGAGATTAATGGAACTGCTTCCCAAGTCCAAGCAGCTCAGCAACTGATACAGgcactcttcctccctgtttttgataccaagttgttggtttgtctttgctaatattgcagtttccatttgcataatgacattgcttaacattagatcattg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctccc