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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGTCTGTTGACCTGCGGATGATGGCTAATGCTTTCAAAACGAGTGTTGCAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttcattgctaatttttttcttgttagaccttaattgtcatttgtaaagaaaacaggttactagttgatgttatatacccagaaaacttcactg...

Basic information

species Vitis vinifera
transcript Vv15s0048g01980.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g01980.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA03G01880.1 (Glycine max), 5'ss of exon 5
CGTGTCTGTTGACCTGCGGATGATGGCTAATGCTTTCAAAACGAGTGTTGCAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttcatt--gctaatttttttcttgttagaccttaatt--gtc--atttgtaaagaaaacaggttactagttgatgttatatacccagaaaacttcactg
 |||||||||||  ||   |||||||||||||| ||||| || | |||||| || || ||||| || || ||||| ||||||||||| || || |||||||| |  ||||| |    |    || || |   || | ||| |||  ||   |||| ||| | ||| |  |    |  | | ||  || |  |     | ||     
TGTGTCTGTTGATTTGAACATGATGGCTAATGCATTCAAGACAACTGTTGCGGGACTTGAGAAGGAACTAGAAGCATTGATTACTGATAATCAGATACAGgtctgatttcacttaatttgccttgttttgtctatagcttgatttggttgaatttataatggaaagaaatcgacacctca-gtattacattcgtttcattt-----

upper sequence: Vv15s0048g01980.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA07G08370.1 (Glycine max), 5'ss of exon 5
CGTGTCTGTTGACCTGCGGATGATGGCTAATGCTTTCAAAACGAGTGTTGCAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttcattgctaattt---ttttcttgtt-agaccttaattgt----catttgtaaagaaaacaggttactagttgatgttatatacccagaaaacttcactg
 |||||||||||  ||   |||||||||||||| ||||| || | |||||| || || |||||||| || |||||  |||||||||| || || ||||||||   |||| | |  ||||||   || ||| ||  | | ||| ||||      |||| ||| | ||| |    ||   |   | ||| ||||    |    |      
TGTGTCTGTTGATTTGAACATGATGGCTAATGCATTCAAGACAACTGTTGCTGGACTTGAGAAAGAACTAGAAGCACTGATTACTGATAATCAGATACAGgtgccgtttgact--taatttgccttgtctagtccatagcttgattgggttgaatttataatggaaaaaatcgacatctcagtattacatactttcattttt------
















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|110699322|gb|EE076217.1|EE076217
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351052819|gb|FQ456547.1|FQ456547
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACACAATTCTCTACGCACGACATGCAGATCAG
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351038425|gb|FQ461117.1|FQ461117
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATTCA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGAT-CA
EST: gi|352786554|gb|FQ479761.1|FQ479761
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351044672|gb|FQ443203.1|FQ443203
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGGTTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|110369076|gb|EC933221.1|EC933221
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351053350|gb|FQ455686.1|FQ455686
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|352776514|gb|FQ474816.1|FQ474816
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351033986|gb|FQ463041.1|FQ463041
EST:     CANGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATATCAAATTTCTCTACGCACGACATGCAAATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|110418008|gb|EC984114.1|EC984114
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351045624|gb|FQ440809.1|FQ440809
EST:     TAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|110378199|gb|EC943318.1|EC943318
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|352798742|gb|FQ478377.1|FQ478377
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACCGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|352791446|gb|FQ481025.1|FQ481025
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351038112|gb|FQ465229.1|FQ465229
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAAACAAAAT-CTCTACGCA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAA-CAAAATTCTCTACGCA
EST: gi|349823325|gb|FQ402524.1|FQ402524
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAATTTCTCTACGCACGA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGA
EST: gi|352794164|gb|FQ479406.1|FQ479406
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACCGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAAATCTCTA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTA
EST: gi|351045527|gb|FQ440712.1|FQ440712
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351051967|gb|FQ450658.1|FQ450658
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCA
EST: gi|351054564|gb|FQ462671.1|FQ462671
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACCGACTACCAAATACAG                         GCTCGGATCGACTCACATAACAAAAATCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351052534|gb|FQ456382.1|FQ456382
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|349820411|gb|FQ406967.1|FQ406967
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACCAAATTCTCTAC
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTAC
EST: gi|351056545|gb|FQ442373.1|FQ442373
EST:     CAGGGCAGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|26266519|gb|CA817582.1|CA817582
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351047650|gb|FQ455047.1|FQ455047
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACCGACNACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|110367302|gb|EC931231.1|EC931231
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
EST: gi|351023589|gb|FQ432972.1|FQ432972
EST:     CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAG                         GCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA
genomic: CAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttc ... tttcatgcagGCTCGGATCGACTCACATAACAAAATTCTCTACGCACGACATGCAGATCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTGTCTGTTGACCTGCGGATGATGGCTAATGCTTTCAAAACGAGTGTTGCAGGGCTGGAGAAAGAGCTTGAAGCTTTGATTACTGACAACCAAATACAGgtattgtttcattgctaatttttttcttgttagaccttaattgtcatttgtaaagaaaacaggttactagttgatgttatatacccagaaaacttcactg

- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagaaaa