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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCCCCTCAGCTCAGTGCCCTAATCTCTCTCGCTGTCTCTTTTCATTTCACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctttctaaactttctctctctagactttatcccttataatgtatatatcgattaattgattgtgatattcgatggttgaatgatgatgttgttttcgtgatatatgtatttgcag

Basic information

species Vitis vinifera
transcript Vv15s0048g00900.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g00900.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT3G60820.3 (Arabidopsis thaliana), 5'ss of exon 1
TCTCCCCTCAGCTCAGTGCCCTAATCTCT--CTC---GCTGTCTCTTTTCATTTCACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctttctaaacttt---ctctctctagactttatcccttataatgtatatatcgattaattgattgtgatat-tcgatggttgaatgatgatgttgttttcgtgatatatgtatttgcag---------
     ||     ||| |   |||| | ||  |||   ||| ||||| |  | | | | ||||| || ||||| || ||||||||||||||||| |||||||||||||||      | | | ||||   |   ||   |  ||| | |  | || ||| | | |   ||| |    | || ||| | |  | |||  | | |||    ||   ||||  |   |  |||            
-----CCATTTTTCATTCTTCTAAGCCCTAGCTCAAAGCTTTCTCTCTCAAATCCGCCATGACTAAACAGCACGCGAACTGGTCTCCTTACGATAACAATGGAGGgtacggatcgtgtgacctttaatcaacctgctgggtttcttcgct-tagtgtctttcttctttattctgatttgctatctgggcgattgtgttacgattcacttactgtgaatttaatcgttgtgtgtttttcag
















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|33408415|gb|CF214042.1|CF214042
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110701338|gb|EE078798.1|EE078798
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110686517|gb|EE064245.1|EE064245
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110731955|gb|EE106817.1|EE106817
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|351056417|gb|FQ454278.1|FQ454278
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTATGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|351040709|gb|FQ438253.1|FQ438253
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|161712237|gb|FC061611.1|FC061611
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|351016321|gb|FQ446181.1|FQ446181
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110708375|gb|EE085848.1|EE085848
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|22011829|gb|BQ796863.1|BQ796863
EST:     AC-ATGACGAAGCAGCAAGCTAACT-GTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110690363|gb|EE067399.1|EE067399
EST:     ACAATGACGAAGCAACAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110722612|gb|EE098996.1|EE098996
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110688266|gb|EE066618.1|EE066618
EST:     ACAATGACGAAGCAACAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110687257|gb|EE064508.1|EE064508
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110705826|gb|EE083120.1|EE083120
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|161705647|gb|FC056192.1|FC056192
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110695795|gb|EE074220.1|EE074220
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|22011827|gb|BQ796861.1|BQ796861
EST:     AC-ATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATC-TGTGTTGCAATTGCA-GTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|28965578|gb|CB344611.1|CB344611
EST:     ACAATGACGAAGCAGCAAGCTAACTGGACTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110701052|gb|EE078242.1|EE078242
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110707254|gb|EE083492.1|EE083492
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110689903|gb|EE066533.1|EE066533
EST:     ACAATGACGAAGCAACAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110686704|gb|EE064648.1|EE064648
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|30135723|gb|CB921061.1|CB921061
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110690981|gb|EE068563.1|EE068563
EST:     ACAATGACGAAGCAACAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|351031033|gb|FQ444860.1|FQ444860
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTATGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110701108|gb|EE078347.1|EE078347
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|34415837|gb|CF414591.1|CF414591
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110688122|gb|EE066314.1|EE066314
EST:     ACAATGACGAAGCAACAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|351018518|gb|FQ424625.1|FQ424625
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
EST: gi|110722795|gb|EE099369.1|EE099369
EST:     ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGG                         ATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC
genomic: ACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctt ... gtatttgcagATCTTGTGTTGCAATTGCAGGTGCCGATTACTGCGTCATCGCAGCCGATAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTCCCCTCAGCTCAGTGCCCTAATCTCTCTCGCTGTCTCTTTTCATTTCACAATGACGAAGCAGCAAGCTAACTGGTCTCCTTACGACAACAATGGAGGgtactctctttctaaactttctctctctagactttatcccttataatgtatatatcgattaattgattgtgatattcgatggttgaatgatgatgttgttttcgtgatatatgtatttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG