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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaacaggttacatcagtcttggtttgttgaatgagtaggtttcatggaacgaccttccactgattctgttgttttgattatttgttgcctgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCTCAGACTGGAGAAACTGACAATGCAAGCTCAGTACCCTCTCTAAATCTCT

Basic information

species Vitis vinifera
transcript Vv09s0002g03610.t01
intron # 2
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|110357442|gb|EC920985.1|EC920985
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|110415930|gb|EC981871.1|EC981871
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|349818098|gb|FQ408873.1|FQ408873
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|349807788|gb|FQ402179.1|FQ402179
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|349822146|gb|FQ412410.1|FQ412410
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCCACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|349819421|gb|FQ412315.1|FQ412315
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACTTG                         GTCACAGATACACCTC
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTC
EST: gi|110711821|gb|EE088734.1|EE088734
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTCCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|351022948|gb|FQ428857.1|FQ428857
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATA                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
EST: gi|33401623|gb|CF207250.1|CF207250
EST:     CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATG                         GTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT
genomic: CTACCCGAAGAAAGAGGCGTTCCAGCCTTTTTGATATGGTTCCAGACATGgtttgtcttg ... tgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaacgaccttccactgattctgttgttttgattatttgttgcctgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCTCAGACTGGAGAAACTGACAATGCAAGCTCAGTACCCTCTCTAAATCTCT
                                           cctgttt  CT-rich tract
                        ttgttttgattattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaacaggttacatcagtcttggtttgttgaatgagtaggtttcatggaacgaccttccactgattctgttgttttgattatttgttgcctgtttgtcagGTCACAGATACACCTCCTGTGCCAGAAGAACAGTTCTTGGTCCCGACTTCTCAGACTGGAGAAACTGACAATGCAAGCTCAGTACCCTCTCTAAATCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
acaacag
- - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - -ttcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgcc