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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttttaatatatcttatgcaatttaatgctaacactttgtctagaaagtgacattgcaatttctatggcttttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGATATCAAGAGTTGTTTGATTGTAGGGAGATCAAAAACAATGTTGATATGTT

Basic information

species Vitis vinifera
transcript Vv11s0016g00240.t01
intron # 4
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|351045083|gb|FQ449337.1|FQ449337
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|351039630|gb|FQ461497.1|FQ461497
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|351044880|gb|FQ449134.1|FQ449134
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|351031831|gb|FQ460088.1|FQ460088
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|349808887|gb|FQ406737.1|FQ406737
EST:     GTGATTTAATCTTCTATCACAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|351012093|gb|FQ429899.1|FQ429899
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|56409693|gb|CX017945.1|CX017945
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|351013159|gb|FQ424864.1|FQ424864
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|352790261|gb|FQ481460.1|FQ481460
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT
EST: gi|351019327|gb|FQ429487.1|FQ429487
EST:     GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGAT                         GTTGAGTGGCTTCCTTATATGAACATTGACAGTAGAATTATACCAGAAGAT
genomic: GTGATTTAATCTTCTATCGCAAGGCATTGGACTCCCTCAAGTCAAGTGATgtaagttttt ... ttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctaacactttgtctagaaagtgacattgcaatttctatggcttttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGATATCAAGAGTTGTTTGATTGTAGGGAGATCAAAAACAATGTTGATATGTT
                                          cttttat  CT-rich tract
                               aatttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttttttaatatatcttatgcaatttaatgctaacactttgtctagaaagtgacattgcaatttctatggcttttatgtacagGTTGAGTGGCTTCCTTATATAAACATTGACAGTAGAATTATACCAGAAGATATCAAGAGTTGTTTGATTGTAGGGAGATCAAAAACAATGTTGATATGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA