RnoINT0088186 @ rn6
Intron Retention
Gene
ENSRNOG00000016047 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:RGD Symbol;Acc:1306057]
Coordinates
chr5:141083317-141084639:-
Coord C1 exon
chr5:141084398-141084639
Coord A exon
chr5:141083524-141084397
Coord C2 exon
chr5:141083317-141083523
Length
874 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
GAAAACCTTTCCCTCCTTAGGAA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GTGAGGAGGTGTTACTTATCCAGGAGAAGCTGGATGGAATAAAGACCCGTTATGCAGACATCACTGTCACTAGCTCCAAGGCCCTCAGAACTTTAGAACAAGCCCGGCAGCTGGCCACCAAGTTCCATTCTACATATGAGGAACTGACTGGGTGGCTGAGGGAGGTGGAGGAGGAGCTGGCGGCCAGTGGAGGACAGTCTCCCACAGGGGAGCAGATACCCCAGTTTCAGCAAAGGCAGAAG
Seq A exon
GTATGCCATCATTTTACACTCTAACAGGAAAGAGGTTCCGTCTTTGTCTGAATCATGTTTCCTTACTTTTACCTCAGAACTAAACCAAACGTACTGCTGCTTTCTCTCTTGTTTACTCGTGACAATAAGATTTTACATAACCAAAGCATAGGACTGTAGTGTGAAGAGGAAAGAAGCTGATTTCCAGGTACTTAGGAAGTTCGCTTGGTGAGTCACGCCTAATTCACCTCCACCGTTCGTTCTTTCTCTAAAAAGAAGGCACGATTTGGAGACCAGAAGAAGACAAGTGAAAAGGAGGCAGGGGAGATGGATGAGGGCACTGGAAGGGAACGAACAAGAACAATTGAGGAAAGGAATTGAGTGGGGGAGGTGCTTCATAGTTCTGATTCTGCTTCAGGGTCAAAAGCGGTGCTGGATGCACAGAAATTCTATGTGGGTATTTGTTATGTTACATGCCGCTAGTTAGAGCATTAAGGAATAGAAAGAAAGAACTTTTGTTTTTGTTTTGGTTTTGTTTTGTTTTGTTTTTGGTTCTTTTTTTTCCGGAGCTGGGGACCAAACCCAGGGCCTTGCGCTTCCTAGGTAAGTGCTCTACCACTGAGCTAAATCCCCAGCCCCAAGAACTGTTGTTTTATAGGAAGCAAAGTGGCTCAAATTTTGCAGACTGTTGTAAGTAAGCAGCAGTTAAGCTGAAAATCAGGTTTCAAAATGATTGAAAATGTAAGGCAGAGGAAAAAAAGAGCTGAAGGAAGGAGGTCAGTGCCCTGCTGGGATGTGTGCTGGAGATAGACTCCCCCCACACCCCAACACACACACACTGCTGCTGCTGGGCTTAATTTAGCAAGGCGTGGCCTGAAAACCTTTCCCTCCTTAG
Seq C2 exon
GAACTGAAGAAGGAGGTCATGGAGCACAGGCTGGTGTTGGACACCGTGAATGAGGTGAGCCATGCGCTCCTAGAGCTGGTGCCTTGGAGAGCCAGAGAAGGACTGGATAAACTTGTGTCTGATGCCAACGAGCAGTACAAACTGGTCAGTGACACCGTTGGACAAAGGGTAGATGAAATTGATGCTGCTATTCAGAGATCACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016047:ENSRNOT00000045400:58
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.272 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(31.1=40.7),PF0043516=Spectrin=PU(41.1=54.3)
A:
NA
C2:
PF0043516=Spectrin=PD(57.0=88.4),PF0043516=Spectrin=PU(3.7=5.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTCACTAGCTCCAAGGC
R:
CCTTTGTCCAACGGTGTCACT
Band lengths:
349-1223
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]