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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttatgttttggctttgaattgtgtatcagagatgaactgtgaatacatgtaaaagtggctgtacagtgtatacatcagttgtatactaatttagctgtgatttatccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTCTTCATGTTCCCCCTGGAAAAATGGGTCGTGTTATTGGAAGACGAGGAGC

Basic information

species Vitis vinifera
transcript Vv04s0008g00650.t01
intron # 7
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|83275821|gb|DV939829.1|DV939829
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|156737847|gb|EV241968.1|EV241968
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|33409610|gb|CF215237.1|CF215237
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|110722833|gb|EE099455.1|EE099455
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|30129707|gb|CB915046.1|CB915046
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|110388273|gb|EC953007.1|EC953007
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|26267080|gb|CA818143.1|CA818143
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCACTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|71883347|gb|DT032402.1|DT032402
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|110365546|gb|EC928709.1|EC928709
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|110416192|gb|EC982154.1|EC982154
EST:     CCCTCCCATTCCAG                         ATAACCTGATTGT-GAAGGAAAATGCTCCAGAGGAAGAAATCCTCTCGTTT
genomic: CCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGG-AAATGCTCCAGAGGAAGAAATCCTCTCGGTT
EST: gi|26265140|gb|CA816203.1|CA816203
EST:     CATCAATGATAATGATTATGCTGAGTGGCCACCTCTCCCTCCCACTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|110385784|gb|EC950339.1|EC950339
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|34542987|gb|CF511219.1|CF511219
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACTTGATTGTAGGATCAAATGCTCCAGAGGA
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGA
EST: gi|110723073|gb|EE099967.1|EE099967
EST:     CCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
EST: gi|33409202|gb|CF214829.1|CF214829
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGA
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGA
EST: gi|110367167|gb|EC931093.1|EC931093
EST:     CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAG                         ATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC
genomic: CATCAATGATAATGATTATGCTGATTGGCCACCTCTCCCTCCCATTCCAGgtttttatgt ... atccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtacagtgtatacatcagttgtatactaatttagctgtgatttatccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTCTTCATGTTCCCCCTGGAAAAATGGGTCGTGTTATTGGAAGACGAGGAGC
                         tactaat  putative branch site (score: 1)
                                          tttatcctt  putative PPT
                    ttgtatactaattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttatgttttggctttgaattgtgtatcagagatgaactgtgaatacatgtaaaagtggctgtacagtgtatacatcagttgtatactaatttagctgtgatttatccttatagATAACCTGATTGTAGAAGGAAATGCTCCAGAGGAAGAAATCCTCTCGGTTCTTCATGTTCCCCCTGGAAAAATGGGTCGTGTTATTGGAAGACGAGGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG