GgaINT0128385 @ galGal3
Intron Retention
Gene
ENSGALG00000023800 | Q90900_CHICK
Description
NA
Coordinates
chr18:486107-486904:-
Coord C1 exon
chr18:486708-486904
Coord A exon
chr18:486291-486707
Coord C2 exon
chr18:486107-486290
Length
417 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
TAGCTGTGCTCATCTCATAGGAA
3' ss Score
6.71
Exon sequences
Seq C1 exon
GCCAAGAACGCCCTGGCCCACGCCTTGCAGTCTGCTCGTCATGACTGTGATTTGCTCCGGGAACAATATGAAGAGGAGCAGGAAGCCAAGGGTGAGCTGCAGCGTGCCCTGTCCAAGGCCAACAGTGAAGTGGCCCAGTGGAGAACCAAATATGAGACAGATGCTATTCAGCGCACAGAGGAACTGGAGGAGGCCAA
Seq A exon
GTATGTGGAGAAAGCAGGGGGTGGGGAAGTAGGGGAAGACAAAAAGGGGAAGACTGACATGATAAATATGAACAGACAAATGTGGTACTATCAAGAAACTCAAGCTGTGCTTTAGAGCAGAGTCATGGGCTGAGGTACATGCTATGAAATAAATATTTGAGAAACGTAAAGGAAAATATTCCCCTGACACAGAGAATAGTAAAGACACTCTAAGAATGGTAGATGCAGAGGGCAAATGTGTTTCTGTACAGAGGGAAACAGAATTGGGAAGACAACAGCATGTTTACAGATTCCTTTCAGTGTTTCTGATTAGTGTACATAGTACATGAAGAGGTAAATCTAGTTCTTGTGAAAATCCTGTCAGCCATCGAGCATGGACTCTTCGCTCCCAAATCATTAGCTGTGCTCATCTCATAG
Seq C2 exon
GAAGAAGCTGGCACAGCGCCTGCAGGATGCCGAGGAACATGTTGAAGCTGTGAATGCCAAATGTGCTTCCCTGGAAAAGACAAAGCAGAGGCTGCAGAATGAGGTGGAGGACCTGATGATTGACGTGGAGCGAGCAAATGCTGCCTGCGCAGCTCTGGACAAGAAGCAGAAGAACTTTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023800:ENSGALT00000001427:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.409 A=NA C2=0.258
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(7.5=100),PF045827=Reo_sigmaC=PD(11.0=24.2),PF0003816=Filament=PD(30.4=42.4),PF0003816=Filament=FE(21.9=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(7.1=100),PF0003816=Filament=FE(20.5=100),PF045827=Reo_sigmaC=PU(34.3=75.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAGTCTGCTCGTCATGAC
R:
CTGCTTCTTGTCCAGAGCTGC
Band lengths:
342-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]