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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagtccctttgtggcaattgtactttagtcttttgtgtttgttctagtgacaaatgatttaaatattgtcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATATGGTCTGCAACCAG

Basic information

species Vitis vinifera
transcript Vv12s0035g00640.t01
intron # 3
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|110730895|gb|EE108499.1|EE108499
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|110731088|gb|EE108908.1|EE108908
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|110712069|gb|EE089270.1|EE089270
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|110362932|gb|EC926494.1|EC926494
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGACCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|110398569|gb|EC965022.1|EC965022
EST:     ATTTGATCACCGTTCAACAGCATAGAACCCTCTTGAACTAATGCGACCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|110380341|gb|EC945597.1|EC945597
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGACCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|110731285|gb|EE105571.1|EE105571
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|294966960|gb|GW839835.1|GW839835
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGACCTT                         ATCTTCACGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
EST: gi|33409794|gb|CF215421.1|CF215421
EST:     ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGACCTT                         ATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT
genomic: ATTTGATCACCGTTCAACAGCAGAGAACCCTCTTGAACTAATGCGGCCTTgtaagcagtc ... tcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttagtcttttgtgtttgttctagtgacaaatgatttaaatattgtcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATATGGTCTGCAACCAG
                                          ttgtctt  CT-rich tract
                            aaatgatttaaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcagtccctttgtggcaattgtactttagtcttttgtgtttgttctagtgacaaatgatttaaatattgtcttgtgcagATCTTCATGAGTTTCTCTCAGCTGTATATGCTGAGTATGATATCATAATATGGTCTGCAACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG