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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttggataaattagtttagatctctttttccgatctctttctgtagatatgtaactcgaatgatttggatttagcttgatttgaagcttgtaattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTGGTAATTGTTGGTGGCCATGTTGTGGTGCAATTTTTCCCTTCAGCCGTTG

Basic information

species Vitis vinifera
transcript Vv13s0019g04120.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|161708458|gb|FC056151.1|FC056151
EST:     GAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: GAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|71857591|gb|DT006646.1|DT006646
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|71861495|gb|DT010550.1|DT010550
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|71860611|gb|DT009666.1|DT009666
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|30255678|gb|CB971810.1|CB971810
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|110689183|gb|EE065183.1|EE065183
EST:     CACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: CACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|351025044|gb|FQ433461.1|FQ433461
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|71862645|gb|DT011700.1|DT011700
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|110381307|gb|EC946633.1|EC946633
EST:     AATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: AATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|351037220|gb|FQ457053.1|FQ457053
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|71863408|gb|DT012463.1|DT012463
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|349828743|gb|FQ418478.1|FQ418478
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|110721127|gb|EE097773.1|EE097773
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGAG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|71860253|gb|DT009308.1|DT009308
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|351017619|gb|FQ435972.1|FQ435972
EST:     ACGGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: ACCGCCACCATTTCAAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
EST: gi|161714461|gb|FC064448.1|FC064448
EST:     AAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGA                         GGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG
genomic: AAATTTTCCGTCATGAGTTCTTCGGCGCTTTCAGGAgtgagtcttc ... taattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatgtaactcgaatgatttggatttagcttgatttgaagcttgtaattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTGGTAATTGTTGGTGGCCATGTTGTGGTGCAATTTTTCCCTTCAGCCGTTG
             aatgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttggataaattagtttagatctctttttccgatctctttctgtagatatgtaactcgaatgatttggatttagcttgatttgaagcttgtaattggtagGGCACAGGCAATTTTTCCGGATTTACGCGGCTGTGCAAGGGCCTTGCTGTGGTAATTGTTGGTGGCCATGTTGTGGTGCAATTTTTCCCTTCAGCCGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- -ggataaa
- - - - - - - - - - - - - - - - - - ctttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tagcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaagct