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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatcatgttgttcattttttatatccttctgtatgtgagaatctgagtttatggtgaacttaaatcattgtatatctcatttccatactgtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCCAAAAGGTATTTGGAGGATGTTCTGGTCCACAAGCAAGCCATACCTTTCA

Basic information

species Vitis vinifera
transcript Vv01s0010g03370.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G10910.2 (Glycine max), 3'ss of exon 3
ttatcatgttgttcatttttta--tatccttctgtatgtgagaatctgagtt-tatggtgaacttaaatcattgtatatctcatttccatactgtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCCAAAAGGTATTTGGAGGATGTTCTGGTCCACAAGCAAGCCATACCTTTCA
 |    | |  || ||  |  |   || ||   |  | |       |||||| ||   |   | || |   |   | ||  | |||  | | ||       ||||||||||||| |||||   ||| || ||||||||||| |||| |||||| |||||||| ||||| |||||||| | ||||||||| || || || ||||
-tgctgtttcattgatgctggaacaatactatggggtttattttattgagttataccattttcctagact-taagacattgc-tttttaaattgcaatttcagAACACAAGGGAAACTGCCTTTGCAATCAGGAAGTTGCCCTTGGTCAAGGCTAAAAGGTACTTGGAAGATGTTCTTGCCCACAAGCAGGCAATTCCATTCA

upper sequence: Vv01s0010g03370.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G37160.1 (Glycine max), 3'ss of exon 3
--ttatcatgttgttcattttttatatccttctgtatgtgagaatctgagtttatggtgaact-taaatcattgtatatctcatttccatactgtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCCAAAAGGTATTTGGAGGATGTTCTGGTCCACAAGCAAGCCATACCTTTCA
  |||  ||||| | || || |  |    |    |   | || ||    |||  |||| |    | |    |   |||  |  |||   |     ||  | ||||||| |||||||||||   |||||| |||||||||||  |||  || || ||||| ||  ||||||||||| ||| |||||| || ||||| |||||| 
ggttaatatgttttccacttatgttgatttaagtttcataaggat---ggttattggtcagtgatgagctttcaaataatttgtttgtctgtccacttcacagAACACTAGGGAGACTGCCTTTGCCATCAGGAAGTTGCCCCTGGTTAAAGCTAAAAGATACCTGGAGGATGTTTTGGCCCACAAACAGGCCATCCCTTTCC
















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|71873945|gb|DT023000.1|DT023000
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110723473|gb|EE100823.1|EE100823
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|33405080|gb|CF210707.1|CF210707
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|352785916|gb|FQ475919.1|FQ475919
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110389474|gb|EC954312.1|EC954312
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110410303|gb|EC975983.1|EC975983
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110410646|gb|EC976337.1|EC976337
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|30135012|gb|CB920350.1|CB920350
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110728251|gb|EE103666.1|EE103666
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|30132956|gb|CB918295.1|CB918295
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110379867|gb|EC945089.1|EC945089
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110395175|gb|EC960782.1|EC960782
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110408348|gb|EC973983.1|EC973983
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110398542|gb|EC964978.1|EC964978
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|32265198|gb|CD716787.1|CD716787
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|32269193|gb|CD718352.1|CD718352
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110364734|gb|EC928205.1|EC928205
EST:     CCAGGGGCTCAGATCTCGGAGGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CCAGGGGCTTAGATCTCAGA-GTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|71873814|gb|DT022869.1|DT022869
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|71886778|gb|DT035833.1|DT035833
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|37188749|gb|CF608098.1|CF608098
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110701444|gb|EE079024.1|EE079024
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|33409449|gb|CF215076.1|CF215076
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|32270225|gb|CD719384.1|CD719384
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|110699698|gb|EE076922.1|EE076922
EST:     CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|33409120|gb|CF214747.1|CF214747
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC
EST: gi|71885231|gb|DT034286.1|DT034286
EST:     CTTGCAAGGCCAGGGGCTCAGATCTCAGAGTTCACTTCAAG                         AACACAAGGGAGGCTGCTCATGCCATTAGAAAGTTGCCTTTAGCCAAGGCC
genomic: CTTGCAAGGCCAGGGGCTTAGATCTCAGAGTTCACTTCAAGgtattatgat ... gtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtttatggtgaacttaaatcattgtatatctcatttccatactgtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCCAAAAGGTATTTGGAGGATGTTCTGGTCCACAAGCAAGCCATACCTTTCA
                                           ctgtctc  CT-rich tract
               ttaaatcattgtatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatcatgttgttcattttttatatccttctgtatgtgagaatctgagtttatggtgaacttaaatcattgtatatctcatttccatactgtctcaatagAACACAAGGGAGACTGCTCATGCCATTAGGAAGTTGCCTTTGGCCAAGGCCAAAAGGTATTTGGAGGATGTTCTGGTCCACAAGCAAGCCATACCTTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- -tcatgtt
- - - - - - - - - - - - tccttct
- - - - - - - - - - - - - - - -gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcat