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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacactagctatttgtgttgaatgatgaaaacttactgttttgccagatttggatattgacatgcttctgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 10
gtacactagctatttgtgttgaatgatgaaaacttactgttttgccagatttggatattgacatgcttct-----gaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT
|||  || | ||||||     |||  ||  ||  |  | |  |||    ||| | | || ||||   ||       ||||| |||||| ||||||||||||| ||||||||||| ||||| ||||| |  |||||| || |||   |||| || || ||||| || ||||| ||||||  |
gtatgcttgttatttgct---aattgtgttaaagtgtt-taatgctgtcttttgctgttaacatatatcatcataaaaatgtagTGTGGTTCCTGCATTCAAGTCTGCTGCTGAAGAGCTTTTGAACAGTTCTGGTTTACCAGTCATTGAATTACTGGCAAAGGCTCTTGCCAAGGCTGTT

upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G29060.1 (Glycine max), 3'ss of exon 10
gtacactagctatttgtgttgaatgatgaaaacttactgttttgccagatttggatattgacatgcttc-tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT
|||  || | || |||     ||   ||  | ||   || |  ||    ||| | | || |||| |||| | ||||| |||||| ||||||||||||| ||||||||||| || || ||||| |  |||||| || |||   |||| || || ||||| || ||||||||||||  |
gtatgcttgttacttgct---aactgtgtcatctgtttgat--gctgtcttttgctgttaacatacttcataaaatgtagTGTGGTTCCTGCATTCAAGTCTGCTGCTGAAGATCTTTTGAACAATTCTGGTTTACCAGTCATTGAATTACTGGCAAAGGCTCTTGCAAAGGCTGTT
















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|351046770|gb|FQ454380.1|FQ454380
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|349818664|gb|FQ403498.1|FQ403498
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351040229|gb|FQ425315.1|FQ425315
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|352790432|gb|FQ478072.1|FQ478072
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351048608|gb|FQ448882.1|FQ448882
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351033398|gb|FQ462049.1|FQ462049
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|161720145|gb|FC066753.1|FC066753
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|161709071|gb|FC058368.1|FC058368
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351039800|gb|FQ464838.1|FQ464838
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|349809274|gb|FQ399048.1|FQ399048
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|352798464|gb|FQ480489.1|FQ480489
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|110391302|gb|EC956267.1|EC956267
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|349812243|gb|FQ411838.1|FQ411838
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351056075|gb|FQ453536.1|FQ453536
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|71870308|gb|DT019363.1|DT019363
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351055609|gb|FQ452074.1|FQ452074
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|30253071|gb|CB970622.1|CB970622
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCCGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351012917|gb|FQ430480.1|FQ430480
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|37184768|gb|CF604122.1|CF604122
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|110690637|gb|EE067971.1|EE067971
EST:     AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351052845|gb|FQ456573.1|FQ456573
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|351035558|gb|FQ463403.1|FQ463403
EST:     AAATCTACTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
EST: gi|349807331|gb|FQ401323.1|FQ401323
EST:     AAATCTACTGGTGTAGAAGCTGCAAGAACAATCACCCAAGTCTCTGATAG                         TGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG
genomic: AAATCTGCTGGTGTAGAAGCTGCAGGAACAATCACCCAAGTCTCTGATAGgtacactagc ... tgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgaaaacttactgttttgccagatttggatattgacatgcttctgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT
                               tattgac  putative branch site (score: 2)
                                       tgcttct  CT-rich tract
     aaactta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacactagctatttgtgttgaatgatgaaaacttactgttttgccagatttggatattgacatgcttctgaaatgcagTGTGATTCCTGCATTCAAATCTGCTGCTGAGGAGCTCTTGAATACCTCTGGTCTATCAGCAGTTGAGTTGCTTGCAAAAGCACTTGCAAAGGCTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG