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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttctggatcatgtgctaataaataacagtgcattactggatgtttcatgttcaagttttaactacttgtaatgaaaaattcccatggtgcag

Basic information

species Vitis vinifera
transcript Vv04s0044g01840.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01840.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA16G21840.2 (Glycine max), 5'ss of exon 11
ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttctggatcatgtgctaataaataa-cagtgcattactggatgtttcatgttcaa-gttttaactacttgtaatgaaaaattcccatggtgcag
|| ||||||| | || ||||| |||||||| || ||||||||||| || ||||||||||  | ||||||||||||      |  |  | ||  | |||| | ||| | |  || |  || |      || |||||   |||                           
ATCGGACACATCTGTGGTTGACATTGGACCTCCTGCTGATTGGGTAAAAATCAATGTGCAAAAAACTgtaagtttatcttgtgttaagatagaatataatctgtgtaattatgtaatttactcaccaaaagttttgtgtacag-------------------------
















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|30131007|gb|CB916346.1|CB916346
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|56409766|gb|CX018018.1|CX018018
EST:     GGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: GGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|110703600|gb|EE080590.1|EE080590
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|351041413|gb|FQ447540.1|FQ447540
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|110374828|gb|EC939763.1|EC939763
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTTGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|110691152|gb|EE068926.1|EE068926
EST:     ATCAATGTGCGGAGAACT                         AAAGATTGTTTTGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: ATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|110711713|gb|EE088506.1|EE088506
EST:     GATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: GATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|34363693|gb|CF405278.1|CF405278
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTTGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|56409464|gb|CX017716.1|CX017716
EST:     GGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: GGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|56409535|gb|CX017787.1|CX017787
EST:     GGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: GGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|46911394|gb|CN546769.1|CN546769
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTTGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|352794399|gb|FQ481630.1|FQ481630
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|30302776|gb|CB979570.1|CB979570
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTTGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
EST: gi|71880737|gb|DT029792.1|DT029792
EST:     TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACT                         AAAGATTGTTTTGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG
genomic: TTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttc ... catggtgcagAAAGATTGTTTCGAGGTTTATGCTTTAGTTCCTGGGCTTCTGCGAGAGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGGACACAGCAGTTGTTGATATTGGACCCCCAGCTGATTGGGTGAAGATCAATGTGCGGAGAACTgtaagttttctggatcatgtgctaataaataacagtgcattactggatgtttcatgttcaagttttaactacttgtaatgaaaaattcccatggtgcag

- - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA