RnoINT0088136 @ rn6
Intron Retention
Gene
ENSRNOG00000016047 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:RGD Symbol;Acc:1306057]
Coordinates
chr5:141191660-141192686:-
Coord C1 exon
chr5:141192532-141192686
Coord A exon
chr5:141191937-141192531
Coord C2 exon
chr5:141191660-141191936
Length
595 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
AGTCTCCTCTTCTACTTCAGGGT
3' ss Score
8.6
Exon sequences
Seq C1 exon
GATGCTGCACACCTGGAGTCAGGACAGCCAGTGCAGTGTGAGTCAGATGTCATCATGTACATTCAGGAGTGTGAGGGTCTCATCAGGCAGCTGCAGGTGGATCTCCAGATCCTACGGGATGAAAAGTACTATCAGTTAGAGGAGCTGGCCTTCAG
Seq A exon
GTGAGTGCAGAGGGGCTCGGAGGGAGGGCTTGCTCGCTGCCTGCCTGCCTGCGAGGTAATGGTAAGACTGAGACAAGAGCCAGGCACTGACTCTTGAGCTCGATTCTCACACTTCTGTGGCTCTGGTATGCATGCACATAGTGTAAGCAGGAAATGTCCCGTGGTGGCCTTCCACTTTTAAACACCTCTCCCTCCCACTAAGGGCCTGGACTCTATTTCCCAATCACTTGCCATGTTACTGTATTCCTTTCTATTTTAGAATGACCTGCAAAAGTACGCTAGCACATGTGACTTTGAAACACTGGTAATCTAATGAACTCATTTAGGATGCAGAGTGTCTAAAGTCACATGGCAATCCAGTATTTATTCTGTTGTGACCTTCAGGAGTCACATAAACACTATATTACTTCCTTCTAATTAACACTTTGATTTGACCTTTGCCTAGATGATGTTAAAATACCACTTTGCATTCCTCTACTAGTTTTTCAAAACACTTTCCCTGATATGGTCTCATTTTTATTTTTCCCATGTGCTTGTTAAATAGATAATGAATATTTTATTTTAGGCATGTTTTAAGTCTCCTCTTCTACTTCAG
Seq C2 exon
GGTCATGCGTCTGCAGGATGAACTGGTCACCCTGCGCTTAGAGTGTACCAATCTATACCGGAAAGGCCATTTCACATCACTTGAATTGGTTCCGCCCTCTACTTTAACCACTACTCATCTGAAAGCAGAACCTCTGAACAAGACGACTCATTCTTCTTCTACCTCCTGGTTTCGAAAACCTATGACCCGGACTGAGCTTGTAGCCATCTCATCCTCTGAAGACGAGGGCAGTCTCCGATTCGTATATGAACTACTCTCTTGGGTAGAAGAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016047:ENSRNOT00000045400:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.108
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(13.7=14.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGCTGCACACCTGGAGTC
R:
ACAAGCTCAGTCCGGGTCATA
Band lengths:
356-951
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]