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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGCTGAGAATGGGCAAGAAGAGTATGTCCGGAATCAGCTAAACAAGGGGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacacataatatgttagcttacctatcagaaaaaatgaaaaattataaagattatgtcttagttgatgatccagtcactgcttgcaagaacacgct...

Basic information

species Vitis vinifera
transcript Vv15s0048g02830.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g02830.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT2G46710.1 (Arabidopsis thaliana), 5'ss of exon 3
AAATGCTGAGAATGGGCAAGAAGAGTATGTCCGGAATCAGCTAAACAAGGGGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacacataatatgttagcttacctatcagaaaaaatgaaaaattataaagattatgtcttagttgatgatccagtcactgcttgcaagaacacgct
|||| | || || ||  |||||||| ||||||| |  ||| | |||   ||  |  | || |||||||||||||||||||| ||||| || || ||||||||   | |   ||    |||  |||  |   | || |  | ||   ||  |||| ||   | || | || || |  | |  | | ||  |  |       
AAATCCAGACAACGGCAAAGAAGAGCATGTCCGTAGACAGTTGAACTGTGGTGTGGTACCACGTGGAATTGATGTTCATTGCTTGGCGGGTTTAATAAAGgttgaaaaaggaaagatttaaattagtttctataacattttaag--ttcaaaaggtttgatgtttgctgttg-ttgaatttcggattaaattag------
















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|349827287|gb|FQ421560.1|FQ421560
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349818738|gb|FQ409272.1|FQ409272
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349813829|gb|FQ414063.1|FQ414063
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|352786649|gb|FQ479856.1|FQ479856
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|351055937|gb|FQ453398.1|FQ453398
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349815160|gb|FQ410383.1|FQ410383
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|351044711|gb|FQ443242.1|FQ443242
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|161713125|gb|FC062483.1|FC062483
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GCATGGCTTAGAGAACTTCCAACAGGTGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349821690|gb|FQ413006.1|FQ413006
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|351018882|gb|FQ425784.1|FQ425784
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349816176|gb|FQ403672.1|FQ403672
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349821932|gb|FQ413103.1|FQ413103
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|351056085|gb|FQ453546.1|FQ453546
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
EST: gi|349810311|gb|FQ401757.1|FQ401757
EST:     GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAG                         GC--GGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA
genomic: GGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacaca ... cattctgcagGCATGGCTTAGAGAACTTCCAACAGGGGTGCTTGATTCCCTTACACCAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATGCTGAGAATGGGCAAGAAGAGTATGTCCGGAATCAGCTAAACAAGGGGCTCTTGCCTCGTGGAATTGATGTTCATTGTTTGGCAGGGTTGATAAAGgtaatacacataatatgttagcttacctatcagaaaaaatgaaaaattataaagattatgtcttagttgatgatccagtcactgcttgcaagaacacgct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaca