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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTACCACATGGAGTCCACTTGCATCAGGAGTGCTTACTGGAAAATACAACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttctgagtgattttaaatttgagtgctgcattgtactgttatgttatggttctccaatattcactgtttacttatttcaaatttacaatttca...

Basic information

species Vitis vinifera
transcript Vv05s0051g00650.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0051g00650.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G04690.1 (Arabidopsis thaliana), 5'ss of exon 3
TCTTACCACATGGAGTCCACTTGCATCAGGAGTGCTTACTGGAAAATACAACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttctgagtgattttaaatttgagtgctgcattgtact-gttatg---ttatggttctccaatattca-ctgtttacttatttcaaatttacaatttca------------
||| || || ||||| ||||||||||| || ||||| ||||| ||||||||||||||| | || |||   || || ||||||||  ||||||| |||||||||   ||| |   |  ||||   | ||  | ||   |  || | | || |   | |   | || |   ||  | ||  |    |  | ||  | |    ||| |            
TCTCACTACCTGGAGCCCACTTGCATCTGGTGTGCTCACTGGTAAATACAACAAGGGAGCTATTCCCTCAGACAGCCGATTTGCATTGGAGAACTACAAAgtattccttttttttcctttttcttgtgtattcttggtcatatttgctaagacctcaatctgcttctgcatctaactaatacactggtacatgtcttggttttaatttctttcgcag
















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|110714394|gb|EE091251.1|EE091251
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|22012551|gb|BQ797585.1|BQ797585
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110700435|gb|EE078471.1|EE078471
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGCAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110705491|gb|EE082401.1|EE082401
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110427791|gb|EC994242.1|EC994242
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110372631|gb|EC936815.1|EC936815
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|161715169|gb|FC064278.1|FC064278
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110715171|gb|EE092916.1|EE092916
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110386404|gb|EC950997.1|EC950997
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110705588|gb|EE082610.1|EE082610
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
EST: gi|110362011|gb|EC925517.1|EC925517
EST:     ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAA                         AATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA
genomic: ACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttc ... tgccttctagAATCTTGCTAGCCGATCCCTTGTCGATGATGTGCTGAGAAAAGTAAATGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTACCACATGGAGTCCACTTGCATCAGGAGTGCTTACTGGAAAATACAACAAGGGAACAATACCCCAGGATAGTCGATTTGCCCTGGAGAATTACAAAgtaaaacttctgagtgattttaaatttgagtgctgcattgtactgttatgttatggttctccaatattcactgtttacttatttcaaatttacaatttca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA