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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtctgaaaagaaccaatggttgttccttctggttcaaccactgatttccacaatacaagcccaaaaacttagcataattttctaatttcgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTAAGAGGAGCAGGGCACCAAGTGCCAAGTTTCCGGCCCAAGAGAGCTCTTT

Basic information

species Vitis vinifera
transcript Vv13s0158g00080.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|110380394|gb|EC945657.1|EC945657
EST:     TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
EST: gi|110708041|gb|EE085130.1|EE085130
EST:     TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
EST: gi|30296495|gb|CB973289.1|CB973289
EST:     TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
EST: gi|110377203|gb|EC942261.1|EC942261
EST:     TGAAGCTCTCTATAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
EST: gi|110381570|gb|EC934818.1|EC934818
EST:     TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
EST: gi|110706078|gb|EE083660.1|EE083660
EST:     TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
EST: gi|30296446|gb|CB973240.1|CB973240
EST:     TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAG                         GTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA
genomic: TGAAGCTCTCTGTAAAGACTCCATGGCACCCTTGGTTCGTTGCTGGGGAGgtaatttttt ... cgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttccacaatacaagcccaaaaacttagcataattttctaatttcgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTAAGAGGAGCAGGGCACCAAGTGCCAAGTTTCCGGCCCAAGAGAGCTCTTT
                                    ttctaat  putative branch site (score: 2)
                              ataattttctaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtctgaaaagaaccaatggttgttccttctggttcaaccactgatttccacaatacaagcccaaaaacttagcataattttctaatttcgtgtgacagGTTGGTGGATATACAGAAGTGTACAAGGGAGATCTAACATTTGCTACAGTAAGAGGAGCAGGGCACCAAGTGCCAAGTTTCCGGCCCAAGAGAGCTCTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - -aaaagaa
- - - - - - - - - tggttgt
- - - - - - - - - - - - -tccttct
- - - - - - - - - - - - - - - - - -tcaacca
- - - - - - - - - - - - - - - - - - - - - - - - tccacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccaaaa