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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgttttattttaacaggtcatgatgaaggggatttttttttttttttaattatcttattttaatttttttcccgtaatttttggatatttggaatcccagatttggtcgattttgttgaagactctgggcttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGAACTGGAGGAGAGACTCCGATCGTACTCAGCCACATTGTGTATGAGCGGA

Basic information

species Vitis vinifera
transcript Vv09s0002g03450.t01
intron # 1
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|351056398|gb|FQ454259.1|FQ454259
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCC-TCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|34547124|gb|CF515356.1|CF515356
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|34551064|gb|CF519262.1|CF519262
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGGAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|351047992|gb|FQ441164.1|FQ441164
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCC-TCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|351031694|gb|FQ459951.1|FQ459951
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCC-TCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110375915|gb|EC940945.1|EC940945
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|34547213|gb|CF515445.1|CF515445
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|352789732|gb|FQ478547.1|FQ478547
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110686256|gb|EE063694.1|EE063694
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCNTGAGTTCCCCTCCAAA-NNNNNNNCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|349814631|gb|FQ399271.1|FQ399271
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110363879|gb|EC927508.1|EC927508
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCGTGAGTTCCCCTCCAAATTGTTTCTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|161716405|gb|FC068409.1|FC068409
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110390279|gb|EC955181.1|EC955181
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|349833013|gb|FQ416391.1|FQ416391
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|30126325|gb|CB911664.1|CB911664
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|351019404|gb|FQ429539.1|FQ429539
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|349808849|gb|FQ406699.1|FQ406699
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|37184687|gb|CF604041.1|CF604041
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|351043769|gb|FQ431321.1|FQ431321
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110401242|gb|EC967845.1|EC967845
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|30135485|gb|CB920823.1|CB920823
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|71855491|gb|DT004546.1|DT004546
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|349818985|gb|FQ411680.1|FQ411680
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110396768|gb|EC962467.1|EC962467
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110421556|gb|EC987854.1|EC987854
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|349829847|gb|FQ422160.1|FQ422160
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|294966174|gb|GW839397.1|GW839397
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTATCTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110385809|gb|EC950365.1|EC950365
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110413219|gb|EC978998.1|EC978998
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110713963|gb|EE090343.1|EE090343
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
EST: gi|110401052|gb|EC967645.1|EC967645
EST:     ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAG                         GTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA
genomic: ATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgtttta ... ttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttggaatcccagatttggtcgattttgttgaagactctgggcttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGAACTGGAGGAGAGACTCCGATCGTACTCAGCCACATTGTGTATGAGCGGA
                                            cttttctgc  CT-rich tract
                        attttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgttttattttaacaggtcatgatgaaggggatttttttttttttttaattatcttattttaatttttttcccgtaatttttggatatttggaatcccagatttggtcgattttgttgaagactctgggcttttctgcagGTTCCTGAGTTCCCCTCCAAATTGTTTTTCTTCTGTGAAGTAGAACCTGGAACTGGAGGAGAGACTCCGATCGTACTCAGCCACATTGTGTATGAGCGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA