RnoINT0088183 @ rn6
Intron Retention
Gene
ENSRNOG00000016047 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:RGD Symbol;Acc:1306057]
Coordinates
chr5:141086342-141087140:-
Coord C1 exon
chr5:141086981-141087140
Coord A exon
chr5:141086669-141086980
Coord C2 exon
chr5:141086342-141086668
Length
312 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTTTCCATCTGGATTTCCAGGCT
3' ss Score
7.09
Exon sequences
Seq C1 exon
GCAAAAGCAGCTGGAGGATATCTTGGTTCTGGCTAAACAATTCCACGAGACAGCTGAGCCTATTTCTGACTTCCTATCTGTCACAGAGAAAAAGCTTGCTAACTCGGAACCTGTTGGCACTCAAACTGCCAAAATACACCAGCAGATTATTCGTCACAAG
Seq A exon
GTAGGAAGGTGATGCCACAGATGAAACAACCAGAGGTAGACCTGACAAGGCACAGCTTCCTCTAGATGTTCCACGGAGTTTTTAGTTTAGGATGAAGCACATCTTGGAAAAGTTAGGTTGGGTTGGAGTAGAAGTAGACATTGACTAATAGGTGTGAACATCGAGAGAGAAGAGCGGCTGTGTCACTTCTCTCATTGTTTTTGCTGCGCAGCAGGTGGATTTTATTTTAATTTGTTCTGTTGTTATTCATTGTGTCATGTTTGCTTTTCATTTTCTTTTCTGTTACTCATTTTTTTCCATCTGGATTTCCAG
Seq C2 exon
GCTCTAGAGGAAGAAATAGAAAACCATGCAGCAGATGTGCAGCAGGCAGTTAAAATCGGGCAGTCCCTCTCCTCCCTGATATGTCCAGCAGAACAGGGCATCATGTCAGAAAAGCTAGACTCATTGCAGGCCCGATACAGTGAAATTCAAGACCGGTGCTGTCGGAAAGCATCCCTGCTTGAGCAGGCGCTGTTCAATGCTAGACTGTTCGGGGAGGATGAGGTGGAGGTGCTCAATTGGCTGGCTGAGGTTGAGGACAAGCTCAGTGCAGTGTTCGTAAAGGATTACAGACAGGATGTCCTGCAGAAACAGCATGCCGACCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016047:ENSRNOT00000045400:55
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.093 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(5.6=11.1),PF0043516=Spectrin=PU(41.1=81.5)
A:
NA
C2:
PF0043516=Spectrin=PD(57.0=56.0),PF0043516=Spectrin=PU(40.6=39.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTCCACGAGACAGCTGAGC
R:
CTCATCCTCCCCGAACAGTCT
Band lengths:
344-656
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]