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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatatcaatatgagttttcttgggaaaatttttgttatctttttgggactcattctttgtcgaattctttggcccattgtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCATTACTGCAAGCTTGATATCAAGGACTGCTCATCCTCCCAACTTGAAGCCA

Basic information

species Vitis vinifera
transcript Vv02s0087g00400.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0087g00400.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G35050.4 (Glycine max), 3'ss of exon 10
------gtatgatatcaatatgagttttcttgggaaaattt--ttgttatctttttgggactcattctttgtcgaattctttggcccattgtttggt-cagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCATTACTGCAAGCTTGATATCAAGGACTGCTCATCCTCCCAACTTGAAGCCA
       |  | ||||| |    |||||  |   |    ||  |   |     | |    ||  |  |||  |  || ||  ||    ||| ||| | ||||| |||||||| |||||||||||||| ||||||||| | ||   |||||||  ||||||||||||||| ||  |||||||| |    ||||||||    |
tccataatgagctatcatttgatgttttgctactatcccttaataactggagatatttttctagtcttttccctgatcctcaggat-gttgcttgattcagATTAAGAACATTTTGGCACCGGGTGTTGCTGATCCTGAAGGCCATTGGCATAGCTGCAAGCTTGATATAAACAACTGCTCACCTGATCAACTTGATCTAA

upper sequence: Vv02s0087g00400.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G35480.2 (Glycine max), 3'ss of exon 10
---gtatgatatcaatatgagttttcttgggaa-aatttttgttatctt----tttgggactcattctttgtcgaattctttggcccattgtttgg-tcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCATTACTGCAAGCTTGATATCAAGGACTGCTCATCCTCCCAACTTGAAGCCA
     ||||  | |  ||    | | |||  |  |    ||  || |||    | |    ||  | ||||  |  || ||  ||    |||||||  |||||| |||||||| |||||||||||||| ||||||||| | ||   |||||||  ||||||||||||||| ||  |||||||| |    ||||| ||    |
ccataatgaacttagcatttaatgttttgctactagccgttaataacttgagatatttttctagtcctttccctgatcctcaggat-gttgtttgactcagATTAAGAACATTTTGGCACCGGGTGTTGCTGATCCTGAAGGCCATTGGCATAGCTGCAAGCTTGATATAAACAACTGCTCACCTGATCAACTCGATCTAA
















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|110376481|gb|EC941546.1|EC941546
EST:     CAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: CAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110715153|gb|EE092874.1|EE092874
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110714669|gb|EE091838.1|EE091838
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|30128817|gb|CB914156.1|CB914156
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110377757|gb|EC942842.1|EC942842
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|30251405|gb|CB969138.1|CB969138
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110391590|gb|EC956576.1|EC956576
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|45770699|gb|CN006551.1|CN006551
EST:     AGATC-AAACACCGC-TTTTATCATCAATGCAGCCTA-GATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|18459501|gb|BM437779.1|BM437779
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110375405|gb|EC940389.1|EC940389
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|45770703|gb|CN006555.1|CN006555
EST:     AGATC-AAACACCGC-TTTTATCATCAATGCAGCCTATG-TTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110703741|gb|EE080850.1|EE080850
EST:     CAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: CAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|45770871|gb|CN006723.1|CN006723
EST:     AGATC-AAACACCGC-TTTTATCATCAATGCAGCCTATG-TTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110423673|gb|EC990024.1|EC990024
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110701134|gb|EE078400.1|EE078400
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110360568|gb|EC923781.1|EC923781
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110364047|gb|EC927689.1|EC927689
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110361656|gb|EC925145.1|EC925145
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110382623|gb|EC946935.1|EC946935
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110375774|gb|EC940791.1|EC940791
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110362506|gb|EC926047.1|EC926047
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110396078|gb|EC961753.1|EC961753
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110692352|gb|EE071502.1|EE071502
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110369475|gb|EC933635.1|EC933635
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTTGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110715685|gb|EE094014.1|EE094014
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|45770999|gb|CN006851.1|CN006851
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTGCTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110362390|gb|EC925920.1|EC925920
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|45771174|gb|CN007026.1|CN007026
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTGCTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|33410372|gb|CF215999.1|CF215999
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|18458990|gb|BM437268.1|BM437268
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTG
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTG
EST: gi|22012950|gb|BQ797984.1|BQ797984
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|351029203|gb|FQ435403.1|FQ435403
EST:     AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: AGATCAAAACACCGCTTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
EST: gi|110693635|gb|EE070040.1|EE070040
EST:     TTTTTATCATCAATGCAGCCTATGATTCATGGCAG                         ATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT
genomic: TTTTTATCATCAATGCAGCCTATGATTCATGGCAGgtatgatatc ... gtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatctttttgggactcattctttgtcgaattctttggcccattgtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCATTACTGCAAGCTTGATATCAAGGACTGCTCATCCTCCCAACTTGAAGCCA
                             aattcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatatcaatatgagttttcttgggaaaatttttgttatctttttgggactcattctttgtcgaattctttggcccattgtttggtcagATAAAGAACATCTTGGCACCGGGTGTCGCTGATCCTCATGGTACTTGGCATTACTGCAAGCTTGATATCAAGGACTGCTCATCCTCCCAACTTGAAGCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC