GgaINT0069334 @ galGal4
Intron Retention
Gene
ENSGALG00000009266 | FGA
Description
fibrinogen alpha chain isoform 1 precursor [Source:RefSeq peptide;Acc:NP_001258840]
Coordinates
chr4:19793620-19796157:-
Coord C1 exon
chr4:19795152-19796157
Coord A exon
chr4:19794781-19795151
Coord C2 exon
chr4:19793620-19794780
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
ACTGCGATGATATCCGCCAGAAACACACTTCTGGTGCCAAAAGTGGCATTTTCAAAATCAAGCCAGAGGGATCCAATAAGGTTTTGTCAGTTTATTGCGACCAAGAGACCACTTTGGGAGGATGGCTATTGATCCAACAGAGAATGGATGGATCAGTGAATTTTAACCGTACGTGGCAAGACTACAGGAGAGGTTTCGGCAGCGTGGATGGCAAAGGGCAAGGAGAGTTGTGGCTGGGCAATGAGAATATCCACTTGCTGACTCAGAACGATACTCTGCTTCGAGTAGAGTTAGAGGACTGGGATGGAAATGCTGCATATGCAGAGTACATCGTGCAGGTAGGGACTGAAGCAGAAGGCTATGCCCTGACTGTGTCCTCCTATGAGGGGACTGCTGGGGATGCTCTGGTTGCTGGCTGGCTGGAGGAGGGCTCTGAGTACACATCCCATGCCCAGATGCAGTTCAGCACTTTTGACCGGGACCAGGACCACTGGGAGGAGAGCTGTGCAGAGGTGTACGGGGGTGGCTGGTGGTACAACAGCTGCCAGGCAGCCAACCTCAATGGCATTTACTATCCAGGGGGCCATTATGACCCCAGGTACAATGTTCCATATGAGATCGAGAATGGAGTAGTCTGGATACCATTTAGAGCCTCCGATTATTCCCTCAAAGTTGTTAGAATGAAAATCAGACCCCTGGAAACCCTGTAGAAGGACGGGCATTTAATATATGTGTCACAACTAAAAGTTGGAAACATCTTTTATATACCTGTGTGCACGATGTACCTTTACCCTATGAATTTGAAGGCAGCATGGCACATCTATGGCATACAAAATAAACGGATTAATTATTAACAAAACAGTTCTTTCATCTTGTTTATAACTGACAAAACTTTTCAAGGAAATGTTGATTTTAAAAACCTTATATAAATCTCTGCAACCTTTTGTCCCTTCAGTGCTTCTTACTACTATATTTAGTTTGACAACTTAAAATGTCAAAATCTCACATTCTGTGATATTCCTAATATCCTCATGTGTGGTTAAGCAATTGTTCTGAAATGGGAATTGAAAAATGACATTGTGTGCTGTGATATTCTAAACTACAATTTGAGTTTATCTTGATGGTGATGGGGAAGAGAAGTCTTGAGTATTCTCCTTTTGG
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
Cow
(bosTau6)
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]