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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgaaacaaggactagatttctaagtggccactggttacatgatgaacgactattgtaaaactgtggtttggttctgaatcatgtggtggtttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGATGATGATGCGTTTGAATAGATGGAGGGTTGTTCCCTGTTGTCCAATGTC

Basic information

species Vitis vinifera
transcript Vv04s0008g05020.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|110695697|gb|EE074010.1|EE074010
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAAATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110724001|gb|EE099447.1|EE099447
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110395970|gb|EC961644.1|EC961644
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110723317|gb|EE100491.1|EE100491
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110370561|gb|EC930011.1|EC930011
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110703623|gb|EE080641.1|EE080641
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110724830|gb|EE101011.1|EE101011
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAAGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110718100|gb|EE094549.1|EE094549
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCGACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCCA-ATGACG
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCC-AGATGACG
EST: gi|29783439|gb|CB349598.2|CB349598
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110722837|gb|EE099459.1|EE099459
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110697462|gb|EE074469.1|EE074469
EST:     CCTGCTCTAGCTCCTCCGGAAGT-CACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTANTCCACCCCTTCCAAATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
EST: gi|110399139|gb|EC965632.1|EC965632
EST:     CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACA                         GCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA
genomic: CCTGCTCTAGCTCCTCCGGAAGTTCACATCGACTTGGCTGCACAGCAACAgtaagcattt ... tttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacgactattgtaaaactgtggtttggttctgaatcatgtggtggtttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGATGATGATGCGTTTGAATAGATGGAGGGTTGTTCCCTGTTGTCCAATGTC
                                             ttttt  CT-rich tract
      tattgtaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgaaacaaggactagatttctaagtggccactggttacatgatgaacgactattgtaaaactgtggtttggttctgaatcatgtggtggtttttggcagGCATGAGGCTGAACTTGCTGCAGCTGCTAGTCAACCCCTTCCAGATGACGATGATGATGCGTTTGAATAGATGGAGGGTTGTTCCCTGTTGTCCAATGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- gaaacaa
- - - - - - - - - - - - - -gccactg
- - - - - - - - - - - - - - - - - - - catgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtggtgg