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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACAGCCTCATCAGGGTATATCTGCATACGGCAGAGAAGTGCCAATGGGTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcctgtttcgtttttggtggtttattttaattttttgtttactttttaattttttatttattaaatcatttagagtactagggaaaaaatgta...

Basic information

species Vitis vinifera
transcript Vv14s0081g00440.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0081g00440.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G04610.1 (Arabidopsis thaliana), 5'ss of exon 5
------------AAAACAGCCTCATCAGGGTATATCTGCATACGGCAGAGAAGTGCCAATGGGTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcatttt--cctgtttcgtttttggtggtttattttaattttttgtttactttttaattttttatttattaaatcatttagagtactagggaaaaaatgta------
             |||||||||||||| |||||||||||||| || |||||    || |||  ||  || | | |||||  | | | |   |   | |||   ||  | |   ||  |    | ||||  |   |||   ||| | | ||   |    ||||  | |  |   |  ||  || |||   |     ||    ||       |||       
ACCTCCAATGGAGAAACAGCCTCATCAAGGTATATCTGCATATGGTAGAGAGCCTCCTATGAATGTGCACGTATCATCAGCCCCACCAATGGTCGC-TCAGgtattccgccaatctctgcaacatgttatgaagttgactgttcaatcta--ctgcaatttatgtatgtaaagtaaatcaatgaaaatctgagtggtgtggggatttgtttgttttgcag
















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|351045277|gb|FQ451725.1|FQ451725
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|351041105|gb|FQ444082.1|FQ444082
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110379289|gb|EC944474.1|EC944474
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|351012327|gb|FQ430012.1|FQ430012
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|27584908|gb|CB007603.1|CB007603
EST:     GCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|351025530|gb|FQ435223.1|FQ435223
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|349819655|gb|FQ413539.1|FQ413539
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110374725|gb|EC939649.1|EC939649
EST:     TCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: TCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110407487|gb|EC973089.1|EC973089
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|27584403|gb|CB007098.1|CB007098
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|32249112|gb|CD714931.1|CD714931
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|351041193|gb|FQ444170.1|FQ444170
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGATATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|352795574|gb|FQ480162.1|FQ480162
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTCATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|33404459|gb|CF210086.1|CF210086
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|33404537|gb|CF210164.1|CF210164
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|28962576|gb|CB341609.1|CB341609
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110386025|gb|EC950595.1|EC950595
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|27583216|gb|CB005911.1|CB005911
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|351023807|gb|FQ448358.1|FQ448358
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|30323483|gb|CD006745.1|CD006745
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110698109|gb|EE075743.1|EE075743
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110389550|gb|EC954400.1|EC954400
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|349815860|gb|FQ401016.1|FQ401016
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
EST: gi|110718620|gb|EE095661.1|EE095661
EST:     GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAG                         GTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA
genomic: GTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcc ... ttttttgcagGTAACACAACAAATGCAGATTCCTCTGTCTTATGCTGATGCCGTTATTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAACAGCCTCATCAGGGTATATCTGCATACGGCAGAGAAGTGCCAATGGGTGGTCATGCACCATCAAGCGCCCAACCTGCACCATCAATGATCACACAGgtcattttcctgtttcgtttttggtggtttattttaattttttgtttactttttaattttttatttattaaatcatttagagtactagggaaaaaatgta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat