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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACTATCTACTTTTTTTTCTCTCTCCATCTCTAAAAACAGACATGATTCGTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccctgaaaccgcttaaattcctctttctcggatctgtcccttttcttgctttttaagtttgcaatatttggaaaacagtattgttggatctgg...

Basic information

species Vitis vinifera
transcript Vv02s0012g02790.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g02790.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ36517 (Selaginella moellendorffii), 5'ss of exon 1
-ACACTATCTACTTTTTTTTCTCTCTCCATCTCTAAAAACAGACATGATTCGTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactg-ccctgaaaccgcttaaattcctctttctcggatctgtcccttttcttgctttttaagtttgcaatatttggaaaacagtattgttggatctgg
  | ||         | |   |||  | |||        ||| ||||      |   ||||| |||| || |||||||||||||| |||||||| |||||||| |      ||   |      | ||       ||| | ||   |   ||||||| |||| |   ||| | |     |                       
GGCGCTGAA-GTGAGTCTAGATCTTCCAATCCTCGTCCCCAGGCATGGCGTCCCGCTACGATTCGAATCCATTCGATGAGGAAGACGTCAATCCCTTCTCGgtgagaaattctaggaagaagcagatg-----gtctggaattgataggttttctttctttctttttttcctactccag-----------------------

upper sequence: Vv02s0012g02790.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ18540 (Selaginella moellendorffii), 5'ss of exon 1
-ACACTATCTACTTTTTTTTCTCTCTCCATCTCTAAAAACAGACATGATTCGTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccctgaaaccgcttaaattcctctttctcggatctgtcccttttcttgctttttaagtttgcaatatttggaaaacagtattgttggatctgg
  | ||         | |   |||  | |||        ||| ||||      |   ||||| |||| || |||||||||||||| |||||||| |||||||| |        |    |   | ||   |||      |||  ||   |||| |   | |||   | |      |   |                      
GGCGCTGAA-GTGAGTCTAGATCTTCCAATCCTCGTCCCCAGGCATGGCGTCCCGCTACGATTCGAATCCATTCGATGAGGAAGACGTCAATCCCTTCTCGgtgagaaattctaggaagaacagatgg-tctggaattgataggttttttttttctttctttctttctttctactccag----------------------
















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|351035676|gb|FQ463521.1|FQ463521
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351046180|gb|FQ442558.1|FQ442558
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|352794074|gb|FQ479316.1|FQ479316
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|26258680|gb|CA809743.1|CA809743
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351034454|gb|FQ463267.1|FQ463267
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAACCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351034375|gb|FQ463188.1|FQ463188
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351037902|gb|FQ465140.1|FQ465140
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|110364860|gb|EC928418.1|EC928418
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351052620|gb|FQ452532.1|FQ452532
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|352790200|gb|FQ481399.1|FQ481399
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351055369|gb|FQ441967.1|FQ441967
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351036160|gb|FQ464005.1|FQ464005
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351016089|gb|FQ432044.1|FQ432044
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351027248|gb|FQ444497.1|FQ444497
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351044367|gb|FQ452919.1|FQ452919
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|71874794|gb|DT023849.1|DT023849
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351033642|gb|FQ462172.1|FQ462172
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351032807|gb|FQ461696.1|FQ461696
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|352798335|gb|FQ480360.1|FQ480360
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351033496|gb|FQ462147.1|FQ462147
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351039606|gb|FQ461473.1|FQ461473
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|352790134|gb|FQ481333.1|FQ481333
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|110724316|gb|EE100035.1|EE100035
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351056762|gb|FQ443389.1|FQ443389
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351025681|gb|FQ426695.1|FQ426695
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351054105|gb|FQ450187.1|FQ450187
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351047341|gb|FQ451853.1|FQ451853
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
EST: gi|351044729|gb|FQ443260.1|FQ443260
EST:     GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCG                         AAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT
genomic: GTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccc ... tcctttacagAAGGTTGCTACTGCTCCTGGATCAAGGTCGCGCGTTCCTCCAGCTGCGTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACACTATCTACTTTTTTTTCTCTCTCCATCTCTAAAAACAGACATGATTCGTCAAAACGATCCGAACCCGTTCGATGAGGAAGAGGTCAATCCATTCTCGgtaactgccctgaaaccgcttaaattcctctttctcggatctgtcccttttcttgctttttaagtttgcaatatttggaaaacagtattgttggatctgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccttttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaca