GgaINT0038196 @ galGal3
Intron Retention
Gene
ENSGALG00000005073 | PDC
Description
NA
Coordinates
chr8:10158524-10159876:+
Coord C1 exon
chr8:10158524-10158684
Coord A exon
chr8:10158685-10159351
Coord C2 exon
chr8:10159352-10159876
Length
667 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CATTCTCTCCATATTCACAGATG
3' ss Score
8.51
Exon sequences
Seq C1 exon
GGCCCAAAGGTGTGATCAATGACTGGAGAAAGTTTAAATTAGAAAGTGAAGATAAAGACTCCTTACCCTTGAGCAAGAAAGAAATTCTTAGACAAATGTCTTCACCACACAGGTCCTTCAGTAAAGATGATAAAGATACCAGAGAGAGATTCTGCCGTAAG
Seq A exon
GTAAGAGAAAAAGAAAAAAAAAATACATTTTGATTCTATATAAAACACACAATTCTGTGAACAAGAAAATCCTGAAATCACCAGCCTTAATTCCTCTGCAGCTTAGCAGAGGTCATGAGAAACAAATCAGAATTACTGACAGTAACTTTACTTTGTAGTTATATTGTAAATATAACACAAAGCATCCTCTTCGGCACAGATCATATCACTGTCACAAAGTGGCATGCATATACATAGTGCCAATGAAGAATAAGAGAATATTCAAAGAGAAAAGACTGACTTGCCAGGAGAATAGCAGCATCTGACCTAAAACACACATCCAACCATTTATCTAGCCCTCTCTCTAGAAGGTTTTAAGCTCTATAAAATAAGCAGTATACTTCACAACAATATACCACACAATTCTGAGAGCTTGACCTTTCTTTCTCCAGTCCCTGCCTTAACACTGTATCTTTGGTTGGGGCAACTGAAAAATTTTTAATATGCTTAAGGGCCATGGGATGGGATCTTCATACCTATCTCTTCAGGAAGCATTAAAGAAACTGTAGAAAGTTGTTCTTCTAGCTAAGCTTTCTATGCAGTGTTCTTTAGATAGCAACTCTTATCTTCCTGTTTTAGTGTCAGTAAACAACCACTTATTCATATAGCATTCTCTCCATATTCACAG
Seq C2 exon
ATGAGTATGCAGGAGTATGAATTAATAAATGATGAGAAAGAAGATGAAAGTTGCCTACAAAAATACCGTAAACGCTGCATGCAGGATATGCACCAAAGGCTGAGTTTTGGGCCTAAATATGGCTATCTGTGTGAGCTGCAAAATGGAGAACAGTTCCTGGAAGCCATTGAAAAAGAACGTAAAACTACCACCGTCATTGTTCACATTTATGAAGATGGCATCAAGGGCTGCAATGCTCTGAACAGCAGCTTAACCTGCCTTGCTGCTGAGTACACTACTGTGAAGTTCTGCAAGATCAAGGCCTCCAACACCGGGGCTGGAGACCGCTTCTCAGACGAAGTGCTTCCCACTCTGCTCGTCTATAAGGGTGGAGAGCTTCTGAGCAATTTCATCAGCGTTTCTGAACAATTCAATGAGGAATTCTTTGCTGTGGATGTGGAGTCTTTCCTAAACGAGTATGGGTTGCTACCTGAAAGGGAGCTTCCAGCACTGGGAAATGTCAACACGGATGAGCAAGATGTTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005073:ENSGALT00000008131:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.046
Domain overlap (PFAM):
C1:
PF0211411=Phosducin=FE(21.3=100)
A:
NA
C2:
PF0211411=Phosducin=FE(69.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACTCCTTACCCTTGAGCAAGA
R:
AGAGCATTGCAGCCCTTGATG
Band lengths:
345-1012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]