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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTGTTCTCAGAGAACTTGGAAAGTCTGCCTCGTGTTTTCTATGATAAAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattctttgccttctctttttcttaaaaactatttgtcatgttaagtcagtgttcatcttcttgatgcatttgaatggcaaagttgaagctccaatat...

Basic information

species Vitis vinifera
transcript Vv16s0050g01450.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g01450.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA16G29590.1 (Glycine max), 5'ss of exon 5
GAAGCTGTTCTCAGAGAACTTGGAAAGTCTGCCTCGTGTTTTCTATGATAAAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgta--attctttgccttctctttttcttaaaaactattt-----gtcatgtta--agtcagtgttcatcttcttg--atgcatttgaatggcaaagttgaagctccaatat------------------------------------------------------------
|||| | ||     || || |||||||  ||||||||   || | |||||||||||| || |||||| ||| ||| | |||||| ||||||||||||||||||  ||  |||||       | |   |  ||| |||||     || |  |||      |||  |  ||| |||   |||    || ||    | |   |   |  | | |                                                            
GAAGTTATTAATGCAGTACATGGAAAGCTTGCCTCGTAGATTTTTTGATAAAATGATATCTATCTACCATAAGAGGGGCATGCATGAGAAGATGTTTGAGgtattatgatttgcaactcgatatcaatttaaaatatttactcggtaacattactgagtagtagttgtctacttaacatgtccctgtattaatatgactagattatactttatttgaagttacttcagacttaacatatcatggatattcacttcttgatttctcctgtag

upper sequence: Vv16s0050g01450.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA09G24100.1 (Glycine max), 5'ss of exon 5
GAAGCTGTTCTCAGAGAACTTGGAAAGTCTGCCTCGTGTTTTCTATGATAAAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgta------attctttgccttctctttttcttaaaaactatttgtcat-gttaagtcagtgt-tcatcttcttgatgcatttgaatggcaa---agttgaagctccaatat-------------------------------------------
 ||| | ||     || || |||||||  ||||||||   || | |||||||||||| || |||||| ||| ||| | |||||| ||||||||||||||||||      ||      |    | |   | |||   | || | ||  | || || | |   | ||    | || ||     |  |||  |    | |||||| | |   |                                            
AAAGTTATTAATGCAGTACATGGAAAGCTTGCCTCGTAGATTTTTTGATAAAATGATATCTATCTACCATAAGAGGGGCATGCATGAGAAGATGTTTGAGgtattaatgatatgcaactcgatatcaatgttactgagtagtagtagttgtcaacttaacatgtccctatattaatatgactagatgatactatatttgaaggtacttcagacttgacacatcatggatattcacttcttgatttctcctgtag
















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|22013215|gb|BQ798249.1|BQ798249
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|351054436|gb|FQ450519.1|FQ450519
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTANTACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|351033744|gb|FQ462274.1|FQ462274
EST:     AAATGGTCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTGGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|349822100|gb|FQ408429.1|FQ408429
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|349814396|gb|FQ398836.1|FQ398836
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|349815708|gb|FQ400864.1|FQ400864
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTGGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|351055367|gb|FQ441965.1|FQ441965
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTGGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|22014552|gb|BQ799586.1|BQ799586
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|349827078|gb|FQ421351.1|FQ421351
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|22013491|gb|BQ798525.1|BQ798525
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|351052433|gb|FQ452466.1|FQ452466
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTGGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
EST: gi|352781628|gb|FQ468926.1|FQ468926
EST:     AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAG                         ATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT
genomic: AAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattcttt ... tctcttgtagATATTTGCTGACATGGAAGAGCTCGGGATTCGGCCTAATACTTCAATCGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGCTGTTCTCAGAGAACTTGGAAAGTCTGCCTCGTGTTTTCTATGATAAAATGATCTCCATCTACTATAGGAGAGACATGCACGAGAAGATGTTTGAGgtaattctttgccttctctttttcttaaaaactatttgtcatgttaagtcagtgttcatcttcttgatgcatttgaatggcaaagttgaagctccaatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcaaag