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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaatgcttctctttgattaatcacaccccatgtcttgtcattgagaatttttcttatgataatttcatactttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGATCTGTTCCCAACCAGTGAAAGGAAAGCTGTGCTCACTTCAACTCTGTGTT

Basic information

species Vitis vinifera
transcript Vv06s0004g06730.t01
intron # 5
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|352768954|gb|FQ468145.1|FQ468145
EST:     TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTG                         TGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
genomic: TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTGgtgagaatgc ... ttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
EST: gi|161712917|gb|FC062390.1|FC062390
EST:     TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTG                         TGGCATAGAAGCCCAGGGAAGAAAGGCTCCCACTTCAATCCTA-CAGTGAT
genomic: TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTGgtgagaatgc ... ttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
EST: gi|294966337|gb|GW837588.1|GW837588
EST:     TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTG                         TGGCATAGAAGCCCA
genomic: TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTGgtgagaatgc ... ttcactgcagTGGCATAGAAGCCCA
EST: gi|352773722|gb|FQ472504.1|FQ472504
EST:     TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTG                         TGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
genomic: TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTGgtgagaatgc ... ttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
EST: gi|110379212|gb|EC944392.1|EC944392
EST:     ATCTTTGCATACCCTATGTACTTG                         TGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
genomic: ATCTTTGCATACCCTATGTACTTGgtgagaatgc ... ttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT
EST: gi|351019690|gb|FQ439507.1|FQ439507
EST:     TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTG                         TGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCCATCCTAACAGTGAT
genomic: TTTTCAGATTTACAGTGCCTTTCCCCATCTTTGCATACCCTATGTACTTGgtgagaatgc ... ttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccatgtcttgtcattgagaatttttcttatgataatttcatactttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGATCTGTTCCCAACCAGTGAAAGGAAAGCTGTGCTCACTTCAACTCTGTGTT
                                           ctttcact  CT-rich tract
                   aatttttcttatgata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagaatgcttctctttgattaatcacaccccatgtcttgtcattgagaatttttcttatgataatttcatactttcactgcagTGGCATAGAAGCCCAGGGAAGAAGGGCTCCCACTTCAATCCTAACAGTGATCTGTTCCCAACCAGTGAAAGGAAAGCTGTGCTCACTTCAACTCTGTGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG