GgaINT0069334 @ galGal3
Intron Retention
Gene
ENSGALG00000009266 | FGA
Description
NA
Coordinates
chr4:21404687-21406773:-
Coord C1 exon
chr4:21405768-21406773
Coord A exon
chr4:21405397-21405767
Coord C2 exon
chr4:21404687-21405396
Length
371 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
AGATCAACTTTTTTTTTTAGACT
3' ss Score
6.45
Exon sequences
Seq C1 exon
GTGGACATTGATATTAAGATACGAGCTTGCAAAGGGAGCTGTGCTAGAAGTTTTGATTACCAGGTGGACAAAGAAGGCTATGACAACATCCAGAAGCATCTTACCCAGGCCAGCTCCATTGATATGCACCCAGACTTTCAAACAACCACCTTGAGCACACTGAAAATGAGGCCTCTTAAGGACTCGAATGTTCCTGAACATTTTAAGCTCAAGCCTTCACCAGAAATGCAAGCTATGAGTGCATTTAATAACATCAAACAGATGCAAGTGGTATTAGAAAGACCAGAAACAGACCACGTGGCAGAAGCAAGGGGGGATTCTTCACCTTCCCACACTGGCAAATTAATTACTTCTTCTCACAGGAGAGAGAGCCCTAGCCTGGTAGACAAAACCTCCTCTGCCTCCTCTGTCCATAGATGCACCAGAACTGTCACCAAGAAAGTCATTAGTGGCCCTGATGGTCCTAGAGAAGAAATAGTTGAAAAAATGGTTTCCTCTGATGGCTCAGACTGCTCCCATCTACAAGGAGGACGAGAAGGAAGCACGTACCATTTTAGTGGGACAGGTGACTTTCACAAGCTAGACAGGCTTCTGCCAGATCTAGAGTCATTCTTCACCCATGACTCTGTATCCACTAGTAGTAGGCACTCAATTGGCTCAAGCACCAGCAGCCATGTGACTGGGGCAGGCAGCAGCCACCTAGGCACTGGAGGGAAAGACAAATTCACAGATTTAGGGGAGGAGGAAGAAGATGACTTTGGAGGACTTCAGCCATCTGGATTTGCTGCTGGCAGTGCGAGTCACTCCAAGACTGTACTGACCAGCTCCTCTTCTAGTTTCAACAAGGGAGGCTCCACTTTTGAAACCAAGTCACTAAAGACCCGTGAAACATCTGAGCAGCTAGGTGGGGTGCAACATGATCAGAGTGCAGAGGACACCCCAGACTTTAAGGCGCGCAGCTTCAGACCAGCAGCAATGAGTACAAGGAGATCCTACAATGGGAAAG
Seq A exon
GTACACAGAAGTAGTAATTGAGGTAGTGGAGCCAAATTCAATTCATAACCAAACTGACAGAATGTTTTTAGATACTGCAGTATAATAGTGTGATGATAAAATGCCAGAACTGTGTCTGTTTGTTGCCACTTTGGAGATAAAAGAGAACTATATCACTAATAGTCAGGTATTGCATAGACAATTAGCAATATAAGATCTGTGTAAGGTTTTCCTCTCTCAATTCTTTTTAATGTTGCCTGTCACTAAACCTTATGTTGTCCAAGACACATTTAACAAATTTTCCTCAGATCTATTGCTGCTTGGATTCCTCTGAAGTTTTTATTAAGCTTTACTGATAACTTCTGTCAAACCAGATCAACTTTTTTTTTTAG
Seq C2 exon
ACTGCGATGATATCCGCCAGAAACACACTTCTGGTGCCAAAAGTGGCATTTTCAAAATCAAGCCAGAGGGATCCAATAAGGTTTTGTCAGTTTATTGCGACCAAGAGACCACTTTGGGAGGATGGCTATTGATCCAACAGAGAATGGATGGATCAGTGAATTTTAACCGTACGTGGCAAGACTACAGGAGAGGTTTCGGCAGCGTGGATGGCAAAGGGCAAGGAGAGTTGTGGCTGGGCAATGAGAATATCCACTTGCTGACTCAGAACGATACTCTGCTTCGAGTAGAGTTAGAGGACTGGGATGGAAATGCTGCATATGCAGAGTACATCGTGCAGGTAGGGACTGAAGCAGAAGGCTATGCCCTGACTGTGTCCTCCTATGAGGGGACTGCTGGGGATGCTCTGGTTGCTGGCTGGCTGGAGGAGGGCTCTGAGTACACATCCCATGCCCAGATGCAGTTCAGCACTTTTGACCGGGACCAGGACCACTGGGAGGAGAGCTGTGCAGAGGTGTACGGGGGTGGCTGGTGGTACAACAGCTGCCAGGCAGCCAACCTCAATGGCATTTACTATCCAGGGGGCCATTATGACCCCAGGTACAATGTTCCATATGAGATCGAGAATGGAGTAGTCTGGATACCATTTAGAGCCTCCGATTATTCCCTCAAAGTTGTTAGAATGAAAATCAGACCCCTGGAAACCCTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009266:ENSGALT00000015077:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.789 A=NA C2=0.047
Domain overlap (PFAM):
C1:
PF087025=Fib_alpha=PD(15.6=6.8),PF121603=Fibrinogen_aC=WD(100=21.4),PF0014713=Fibrinogen_C=PU(1.3=0.9)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(98.3=97.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
CCGTGAAACATCTGAGCAGCT
R:
ACAACTCTCCTTGCCCTTTGC
Band lengths:
356-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]