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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttcgttttctcagctaacgaaggtagcatatgtataaaaaaatgactcattataatacgattcaacctaattctgtggtttctttatactatttggcagTTATTTTGGTTAATAAAGGCCATATAGATGGTATGCAGCGGCTGCATAAGGAATGTGATTGTTCAAGCTGGCCACATTGGACAATCAGCTGTGAGAAGCG

Basic information

species Vitis vinifera
transcript Vv16s0050g02570.t01
intron # 1
splice site 3'
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|71858967|gb|DT008022.1|DT008022
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351049251|gb|FQ428994.1|FQ428994
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351026149|gb|FQ428161.1|FQ428161
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351012838|gb|FQ430401.1|FQ430401
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351056534|gb|FQ442362.1|FQ442362
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351037286|gb|FQ457119.1|FQ457119
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|161714697|gb|FC064481.1|FC064481
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351019611|gb|FQ439428.1|FQ439428
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351015894|gb|FQ431849.1|FQ431849
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351026397|gb|FQ428409.1|FQ428409
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|110392544|gb|EC958041.1|EC958041
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351028899|gb|FQ434900.1|FQ434900
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351042859|gb|FQ451153.1|FQ451153
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
EST: gi|351023854|gb|FQ423277.1|FQ423277
EST:     CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG
genomic: CTGATTCTCGCTCCTGTTATCTCAGATTCGGATCCTCCACTGGTTTGAATCTGAACAAGGTTGTCACAGGTCGGATTCTGCGATCCGATCCGATCACCTTCGGACCTAAAATTCGAAGATTCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcattataatacgattcaacctaattctgtggtttctttatactatttggcagTTATTTTGGTTAATAAAGGCCATATAGATGGTATGCAGCGGCTGCATAAGGAATGTGATTGTTCAAGCTGGCCACATTGGACAATCAGCTGTGAGAAGCG
                    acctaat  putative branch site (score: 3)
                                  tttctttatactattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttcgttttctcagctaacgaaggtagcatatgtataaaaaaatgactcattataatacgattcaacctaattctgtggtttctttatactatttggcagTTATTTTGGTTAATAAAGGCCATATAGATGGTATGCAGCGGCTGCATAAGGAATGTGATTGTTCAAGCTGGCCACATTGGACAATCAGCTGTGAGAAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - gcatatg
- - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcaacc