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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcacttggaacactttttaatttttttttactttaatatctgcccaaagcaatcaatggtttgtacattcttaaacaactaggttttagtaattag...

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0022g02110.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA20G29060.1 (Glycine max), 5'ss of exon 12
GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagca-----cttggaacactttttaatttttttttactttaatatctgcccaaagcaatcaatggtttgtacattcttaaacaactaggttttagtaattag
|||||||||||  |||||   |||||||||||  | ||| |||| ||  |||| ||  ||||||||||| |||| |||||||||||||| | |||||||| |     ||||  |||  || |    ||   | |  ||  |   |     ||| |   |     ||    | ||  || ||   |    ||   ||||| 
GGTTATACTGAAGTAAAGCAAAGATCACTTCTAACTTCCATGGAGAACTATGTTACATTACTTCTTGAGACTGGCAAACCAATCTACACCCAATCgtgagaaaatcccttgttacaaattatggcattacatgatgttgct--ttaaaagaagtatatagaaacttaagaaatc--aagcattcaaaaatttcaaatta-
















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:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|349818664|gb|FQ403498.1|FQ403498
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351040229|gb|FQ425315.1|FQ425315
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|352790432|gb|FQ478072.1|FQ478072
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTT
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTT
EST: gi|351048608|gb|FQ448882.1|FQ448882
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351033398|gb|FQ462049.1|FQ462049
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|161720145|gb|FC066753.1|FC066753
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAGACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351039800|gb|FQ464838.1|FQ464838
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTN
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATT-
EST: gi|349809274|gb|FQ399048.1|FQ399048
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|352798464|gb|FQ480489.1|FQ480489
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|110391302|gb|EC956267.1|EC956267
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAGACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|349812243|gb|FQ411838.1|FQ411838
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAAGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351056075|gb|FQ453536.1|FQ453536
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|71870308|gb|DT019363.1|DT019363
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAGACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351055609|gb|FQ452074.1|FQ452074
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351012917|gb|FQ430480.1|FQ430480
EST:     AATCATGTGACTGTACTCCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTCGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|37184768|gb|CF604122.1|CF604122
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|110690637|gb|EE067971.1|EE067971
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGNGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351052845|gb|FQ456573.1|FQ456573
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|351035558|gb|FQ463403.1|FQ463403
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAGAAGGTTCTTGCCTGAGGATAAGGTTGATTC
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGAGAAGATTCTTGCCTGAGGATAAGGTTGATTC
EST: gi|349807331|gb|FQ401323.1|FQ401323
EST:     AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATC                         TTTTGCATATGGGGTGTTGAAGAAAATTCTTGCCTGAAGATAAG
genomic: AATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcactt ... catttttcagTTTTGCATATGGGGTGTTGA-GAAGATTCTTGCCTGAGGATAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTATACTGAGATAAAGAGTAGATCACTTCTCGCCTCCCTGGATAATCATGTGACTGTACTTCTTGAGGCTGGGAAACCAATCTACACACCATCgtgagcacttggaacactttttaatttttttttactttaatatctgcccaaagcaatcaatggtttgtacattcttaaacaactaggttttagtaattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaacaa