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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctttttgcatagaatatgactggtgagttctcatgttaatggagtactaatggtttatctttaccatgttttaaacag

Basic information

species Vitis vinifera
transcript Vv19s0015g01010.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0015g01010.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA15G12780.1 (Glycine max), 5'ss of exon 5
GAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctttttgcat---agaatatgactggtg-agttctcatgttaatggagtactaatggtttatctttaccatgttttaaacag
 |||||||| ||  | ||  | || || || ||  | || || || || || ||||  |||||||||||||| || |||||||| |||||||||||||||||   |  | |    ||     | | | | |  ||  | | |||| ||  |  | | || |  ||| |   | |   | || |    ||
CAATGATGGAGTTCTACTAAGAAACCATATTCCACGTATCCTTAAAAAGCACTTCAGGGGAAAGCCATATTACGTTGATCTTCTTGATTTGTTTAATGAGgttgtacttgtacaaatgttgaagtttaatttatgtggatttcatcttgttaaaatgcttaaagttgactatcatgcttttcttt-tag

upper sequence: Vv19s0015g01010.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA09G01820.3 (Glycine max), 5'ss of exon 5
GAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctttttgcat---agaatatgactggtg-agttctcatgttaatggagtactaatggtttatc--tttaccatgttttaaacag
 |||||||| ||  | ||  | || || || ||  | || || | ||| || ||||  ||||||||||||||  | |||||||| |||||||||||||||||   |  |      ||     | | | | |  ||  |   |||| ||  | |  | || || ||| |    ||| |  |  ||| |    
CAATGATGGAGTTCTACTAAGAAACCATATTCCACGGATCCTTAGGAAGCACTTCAGGGGAAAGCCATATTACATTGATCTTCTTGATTTGTTTAATGAGgttgtacttgcacaaatgccgaagtttaaattatgtggagttcatcttgttagtatgcttatagttgactattttgcttttcttttag---
















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|161718315|gb|FC067264.1|FC067264
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|110702878|gb|EE079232.1|EE079232
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|110396453|gb|EC962139.1|EC962139
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|22013972|gb|BQ799006.1|BQ799006
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|110729204|gb|EE105291.1|EE105291
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|71877000|gb|DT026055.1|DT026055
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|30256278|gb|CB972121.1|CB972121
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|46917987|gb|CN547316.1|CN547316
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|71860763|gb|DT009818.1|DT009818
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAG
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAG
EST: gi|110698392|gb|EE075834.1|EE075834
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATC-CGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|77579770|gb|DV218763.1|DV218763
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|110375001|gb|EC939952.1|EC939952
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|161709928|gb|FC060567.1|FC060567
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGA
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGA
EST: gi|30128757|gb|CB914096.1|CB914096
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|110687343|gb|EE064671.1|EE064671
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCCTCAGGACAGATGATAGATTTGATCACGACTATT
EST: gi|46917875|gb|CN547204.1|CN547204
EST:     ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAG                         GTGGAATTTCAGACAGCC
genomic: ATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctt ... ttttaaacagGTGGAATTTCAGACAGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATGATGGGGTGATTCTTCGCAATCAAATCCCTAGAATTCTCAAGAACCATTTCAAAGGAAAGCCATATTATGTGGATCTTCTGGATTTGTTTAATGAGgtgagatctttttgcatagaatatgactggtgagttctcatgttaatggagtactaatggtttatctttaccatgttttaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA