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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtgatttgatctcagtgttcattctgttaattctctaattaattaatttcaactgggaaggacttgagaatatttatctttctatatttttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTTGGCAGTCCCTGAG

Basic information

species Vitis vinifera
transcript Vv07s0129g00270.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|34416638|gb|CF415392.1|CF415392
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|110362193|gb|EC925709.1|EC925709
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|110421395|gb|EC987691.1|EC987691
EST:     CGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: CGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|77589632|gb|DV224103.1|DV224103
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|33407730|gb|CF213357.1|CF213357
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|30137939|gb|CB923277.1|CB923277
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|110396473|gb|EC962161.1|EC962161
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|33402954|gb|CF208581.1|CF208581
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|352768206|gb|FQ467345.1|FQ467345
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|110703855|gb|EE081076.1|EE081076
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|34542441|gb|CF510673.1|CF510673
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|352789701|gb|FQ476299.1|FQ476299
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|33403041|gb|CF208668.1|CF208668
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|33402558|gb|CF208185.1|CF208185
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|34542531|gb|CF510763.1|CF510763
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|352777179|gb|FQ474486.1|FQ474486
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|110717101|gb|EE092665.1|EE092665
EST:     AACAAGTACCGCTTATAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAACAAGGAA-CCATGGACGAAATTTGTTAATGCTGATAACCA-CATT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCA-GGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATT
EST: gi|32246381|gb|CD712200.1|CD712200
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|71882713|gb|DT031768.1|DT031768
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|71883672|gb|DT032727.1|DT032727
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
EST: gi|110415099|gb|EC980973.1|EC980973
EST:     AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAG                         GCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT
genomic: AACAAGTACCGCTTAGAGTTAGACCCGCATCTTGCTGCTCTCGTGGGGAGgttggtgatt ... tttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttcaactgggaaggacttgagaatatttatctttctatatttttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTTGGCAGTCCCTGAG
                                            ttttaat  putative branch site (score: 3)
                                 tctttctatattttt  CT-rich tract
                    ttgagaatatttatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggtgatttgatctcagtgttcattctgttaattctctaattaattaatttcaactgggaaggacttgagaatatttatctttctatatttttaatgtagGCATAGCAGGAAACCATGGACGAAATTTGTTAATGCTGATAACCAACATTTGGCAGTCCCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT