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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGGGATTCAGGTGAAAGCAAGGGTTATGCTTTTATATCCTTCAAAACAAAGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggtgctttatgatagtccaactgtttttggtgaattcttgtgatgtttagaatgattcagtccttgagcccagaccgtcttccattgcttttcttatgtcaatttttcctggatgtaattgctgcag

Basic information

species Vitis vinifera
transcript Vv15s0048g02700.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g02700.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G00830.1 (Arabidopsis thaliana), 5'ss of exon 3
TAGGGATTCAGGTGAAAGCAAGGGTTATGCTTTTATATCCTTCAAAACAAAGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtat-cctggtgctttatgatagtccaactgtttttggtgaattcttgtgatgtttagaatgattcagtccttgagcccagaccgtcttccattgcttttcttatgtcaatttttcctggatgtaattgctgcag
|||||| || ||||| ||||| || ||||||||| || | |||||||| || ||  ||||||| ||||||||||| ||||| || |||||||| || |||| |  |        | |   |||   || | || | ||| | | || ||     ||  | | ||  |    ||  |   |  |  |     |||  | | |                                  
TAGGGACTCTGGTGATAGCAAAGGCTATGCTTTTGTAGCTTTCAAAACCAAAGACGTTGCACAAAAGGCCATTGAGGAGTTGCACAGTAAAGAGTTTAAGgcaagctcaactgctaactgtagcttaagt-ttatcggtcattgctagtttgcattttacttat--aacaattttgtttaacctatacctaatttttgtacag--------------------------------
















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|351029583|gb|FQ427423.1|FQ427423
EST:     AGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|349833092|gb|FQ416470.1|FQ416470
EST:     AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351033373|gb|FQ446605.1|FQ446605
EST:     AGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|349833094|gb|FQ416472.1|FQ416472
EST:     AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351020125|gb|FQ445732.1|FQ445732
EST:     AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|110381778|gb|EC935359.1|EC935359
EST:     AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351014469|gb|FQ437471.1|FQ437471
EST:     AGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|349829473|gb|FQ420005.1|FQ420005
EST:     AGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351015298|gb|FQ445582.1|FQ445582
EST:     AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351044546|gb|FQ443077.1|FQ443077
EST:     AGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGGTTGTTCATT
genomic: AGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351041038|gb|FQ443814.1|FQ443814
EST:     AGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
EST: gi|351019214|gb|FQ429374.1|FQ429374
EST:     AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAG                         GGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT
genomic: AGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggt ... attgctgcagGGGAGAACAATAAGATGTTCTCTATCTGAATCTAAACACAGATTGTTCATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGGGATTCAGGTGAAAGCAAGGGTTATGCTTTTATATCCTTCAAAACAAAGGAGATTGCACAGAAGGCCATTGAAGAGTTACATAGTAAAGAATTCAAGgtatcctggtgctttatgatagtccaactgtttttggtgaattcttgtgatgtttagaatgattcagtccttgagcccagaccgtcttccattgcttttcttatgtcaatttttcctggatgtaattgctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA