DreINT0014483 @ danRer10
Intron Retention
Gene
ENSDARG00000038682 | MFAP4 (2 of 14)
Description
microfibrillar-associated protein 4 [Source:HGNC Symbol;Acc:HGNC:7035]
Coordinates
chr1:58216411-58216810:-
Coord C1 exon
chr1:58216676-58216810
Coord A exon
chr1:58216588-58216675
Coord C2 exon
chr1:58216411-58216587
Length
88 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CTGCTCTCTGTCTCATGTAGCTG
3' ss Score
9.07
Exon sequences
Seq C1 exon
AGCGCTGAGGTACTGCTTTATTCCTCACTGAGCTTCACACATTTACACCAGACCTCAGATTAACCTGTTCATCACTCTCTTCTAGGAGAACAGAGCTCTGCTGTGACCTGCTGTGGAGCGACTGAGTAGATGGCA
Seq A exon
GTAAGTGATCCCGCATCCTTCATACACTCTTTCATATCGCCATCATTATTCTGGACTCATGTTCATTTCTGCTCTCTGTCTCATGTAG
Seq C2 exon
CTGATCTGGATTTTGGCAGCGCTTCTCTCTGCTGCTTTGGCCAGTGACTGTAGATTCATGCAATTCGACTGTTCTGACATCTACAACTCAGGAGAAACTCTCAGTGGGGCTTATACCATCTATCCAGCCGGAGACTCTCCAGTCTGGGTTACTGTCAGATGGTCTCAGAAGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038682:ENSDART00000056494:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(17.8=66.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCTGTGACCTGCTGTG
R:
GTCTCCGGCTGGATAGATGGT
Band lengths:
175-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]