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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcctttgttttgcaattttacttcagcagccaatttataatatgggatacataatttcaaatgatcaattctctctctctgatttttttcatgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG

Basic information

species Vitis vinifera
transcript Vv19s0027g00380.t01
intron # 6
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|110708780|gb|EE086709.1|EE086709
EST:     TTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAA-CCTCTGTCTTCT                         ATATCTGTGAAAAGCTTCTCATTTAAAAATTCTGAAATTCTGAGCTGGGCC
genomic: TTGTTCGTGTTTTGTTCTCATGCTGGCATTTACA-AAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
EST: gi|32246982|gb|CD712801.1|CD712801
EST:     AGCCTCTGTCTTCT                         ATATCTGTAAAAGGCTTCTCATTTAAGAATTCTGAAATTGTGAGCTGGGCC
genomic: AGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
EST: gi|32246630|gb|CD712449.1|CD712449
EST:     TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAGCCTCTGTCTTCT                         ATATCTGTAAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
genomic: TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAAAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
EST: gi|110732599|gb|EE108027.1|EE108027
EST:     TTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAA-CCTCTGTCTTCT                         ATATCTGTGAAAAGCTTCTCATTTAA-AATTTCTGAAAATCTGAGCTGGGC
genomic: TTGTTCGTGTTTTGTTCTCATGCTGGCATTTACA-AAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATT-CTGAAATTCTGAGCTGGGC
EST: gi|30323287|gb|CD006549.1|CD006549
EST:     TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAGCCTCTGTCTTCT                         ATATCTGTAAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
genomic: TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAAAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
EST: gi|26258185|gb|CA809248.1|CA809248
EST:     TGTTCTCATGCTGGCATTTACAGAAGCCTCTGTCTTCT                         ATACTCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGC
genomic: TGTTCTCATGCTGGCATTTACA-AAGCCTCTGTCTTCTgtaagatatc ... catgacccagATA-TCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGC
EST: gi|27579341|gb|CB002036.1|CB002036
EST:     TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAGCCTCTGTCTTCT                         ATATCTGTAAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
genomic: TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAAAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
EST: gi|27581160|gb|CB003855.1|CB003855
EST:     TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAGCCTCTGTCTTCT                         ATATCTGTAAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
genomic: TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAAAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
EST: gi|27580311|gb|CB003006.1|CB003006
EST:     TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAGAGCCTCTGTCTTCT                         ATATCTGTAAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC
genomic: TTTGTTCGTGTTTTGTTCTCATGCTGGCATTTACAAAGCCTCTGTCTTCTgtaagatatc ... catgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatacataatttcaaatgatcaattctctctctctgatttttttcatgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG
                                ctctgat  putative branch site (score: 4)
                        ttctctctctctgatt  CT-rich tract
      ataatttcaaatgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcctttgttttgcaattttacttcagcagccaatttataatatgggatacataatttcaaatgatcaattctctctctctgatttttttcatgacccagATATCTGTGAAAGGCTTCTCATTTAAGAATTCTGAAATTCTGAGCTGGGCCTTCTGTGACAGCAGCAAGCCAGGGCATCCTGCTACTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
-gcctttg
- - - - ttttgca
- - - - - - - - - - - - - gcagcca