RnoINT0088184 @ rn6
Intron Retention
Gene
ENSRNOG00000016047 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:RGD Symbol;Acc:1306057]
Coordinates
chr5:141085303-141086668:-
Coord C1 exon
chr5:141086342-141086668
Coord A exon
chr5:141085388-141086341
Coord C2 exon
chr5:141085303-141085387
Length
954 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTT
5' ss Score
3.5
3' ss Seq
AATGCTCTTCTTCCTTTCAGGCT
3' ss Score
10.73
Exon sequences
Seq C1 exon
GCTCTAGAGGAAGAAATAGAAAACCATGCAGCAGATGTGCAGCAGGCAGTTAAAATCGGGCAGTCCCTCTCCTCCCTGATATGTCCAGCAGAACAGGGCATCATGTCAGAAAAGCTAGACTCATTGCAGGCCCGATACAGTGAAATTCAAGACCGGTGCTGTCGGAAAGCATCCCTGCTTGAGCAGGCGCTGTTCAATGCTAGACTGTTCGGGGAGGATGAGGTGGAGGTGCTCAATTGGCTGGCTGAGGTTGAGGACAAGCTCAGTGCAGTGTTCGTAAAGGATTACAGACAGGATGTCCTGCAGAAACAGCATGCCGACCACCTG
Seq A exon
GTATTTGTGTTTTCATTCTTATGGTTATGTTACTGAATTATTTTGTCATTTTGCCATGTATTTCTTTTCATTTCTCTTTCTTTTAATTTCTTTTCCCCCCTTCATTCCAAACACTTCAACTGTATTGTGTGAATTGCATATTTATACATACAAGTGCATAATTGAGTTGTTGCCAAGTACTAAATCTTTCTGGATAGGCCATGAATAAATACTTTCATTTAACAAGCTGAACTGATGATTCTAAATTGTACAGGTTAGAGTCAGGGTCCATCTCAATTGCACATTGGGTAATTACATCAGTGGATCAGTAGGTTTTCATTTGAGCAGATGAGGGCATTCTGTAACAAACCACATACATCTGAATGGTGGCCATAATCTCATCATGTACCTGTACCTTAAGAGCATTTCTGAAATCACGGAGATTCTGTGTCATCTTATACAATGCGCCTGTTTTGATCTTTTTTTAATTAGTGTCTGTGTGTATATGTGCATGTCAGTGCAGAGGCCAGACATGTCAGATCTGTGTGGAGGTGGATGCCAGCTGCCTTTTGGTGGTGGTGGGAATCAAACCCAAGTTCTCTGGAAGAGCAGTTCCTATTCTTAACTGCTGAGCCTTCTCTCCAGCCATGTTTCAGTTTTCTTTACAAAGTATCGTTATTTTAGACATAATGAGCATTTTCGTTATGTTTCATTTCTAACCTTCTTGTGTTTGATACTGGTTGATTGGTAAAGCTGATTTCATCCTAAATCTTTCCTCACCTGGCACAAAAGAGAACTTGCTATAAAGCATTTCTTAGTTGTGTTTAGTAGAGTAACCAACGAGATAAATGAAGTAGTCAAAATGTTGATTGTGAACTGAGCTGCTAATCTCCTGATGTGTTGTCCTTTTAAAGTCTCAGAGTTCATCCCTCTGTTATGCCATAGTTTTGAAATTAATGCTCTTCTTCCTTTCAG
Seq C2 exon
GCTTTAAATGAAGAGATTATTAATAGAAAGAAGAATGTAGATCAAGCTATTAAAAATGGTCAGGCTCTTCTAAAACAAACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016047:ENSRNOT00000045400:56
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=0.023
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(57.0=56.0),PF0043516=Spectrin=PU(40.6=39.4)
A:
NA
C2:
PF0043516=Spectrin=FE(26.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCTCCTCCCTGATATGTCC
R:
AGTTTGTTTTAGAAGAGCCTGACCA
Band lengths:
344-1298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]