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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGTAGAGCTTGTCCATTCTTATATTTTGACCAATCCTTCTGGTGATCCAGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcctagatatcttagccttgtgtttcatttcagagaattctccattctattccaagttgttcatctgtaaccatgctctatctttcatttctgc...

Basic information

species Vitis vinifera
transcript Vv05s0020g01460.t01
intron # 4
splice site 5'
intron type U2

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|110424522|gb|EC990885.1|EC990885
EST:     AGCAAAGTTTCTATTGGAACAACTAGTACTGAGAGCAGCAGATTGTGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
EST: gi|22015428|gb|BQ800462.1|BQ800462
EST:     AGCAGCAGATTGCGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
EST: gi|71875940|gb|DT024995.1|DT024995
EST:     AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAGATTGTGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
EST: gi|27583301|gb|CB005996.1|CB005996
EST:     AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
EST: gi|71871282|gb|DT020337.1|DT020337
EST:     AGCAGAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAGATTGTGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
EST: gi|110417760|gb|EC983841.1|EC983841
EST:     AGCAAAGTTTCTATTGGAACAACTAGTACTGAGAGCAGCAGATTGTGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
EST: gi|110363321|gb|EC926899.1|EC926899
EST:     AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAG                         GTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT
genomic: AGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcct ... ttcactgcagGTTTCAGTATGGAAGAATTAATGAGTATCCCAGCTGGTAGGAGAAGGAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGGTAGAGCTTGTCCATTCTTATATTTTGACCAATCCTTCTGGTGATCCAGCAAAGTTTCTATTGGAACAGCTAGTACTGAGAGCAGCAAATTGTGCAGgtacaatcctagatatcttagccttgtgtttcatttcagagaattctccattctattccaagttgttcatctgtaaccatgctctatctttcatttctgc

- - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agagaat