HsaINT0098097 @ hg19
Intron Retention
Gene
ENSG00000127603 | MACF1
Description
microtubule-actin crosslinking factor 1 [Source:HGNC Symbol;Acc:13664]
Coordinates
chr1:39749081-39749857:+
Coord C1 exon
chr1:39749081-39749187
Coord A exon
chr1:39749188-39749737
Coord C2 exon
chr1:39749738-39749857
Length
550 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAA
5' ss Score
6.53
3' ss Seq
TGTTTACCTTCTGGCAATAGGAA
3' ss Score
6.93
Exon sequences
Seq C1 exon
ATGTGGATGTGCCATCTCCAGATGAAAAGTCTGTAATCACTTATGTGTCTTCGATTTATGATGCCTTCCCTAAAGTTCCTGAGGGTGGAGAAGGGATCAGTGCTACG
Seq A exon
GTAAAAGAACATTTTCCTAGAAGGCCTTCTGACTTTGATTCATTTGGGTGAAATGCATTGGTTAGACACTTTCTTAAGCACTTATGGTATACTCATGGTATCAAACTATATATCCAGTATCTTTATCATACATGGACATTATCCTTGGCCCTGGAAATGAGTCTAGATATTGCTAATTTTGTAACAATTAGCATAGACTATTTGGTGCTAAATGCCAGCAAAGAATGTCTCTTTCATCCCCAGCTGTAATTCAAGATGAGGAAGTGTTTTATCAGTCACTTATGTATCAGCTTGATTAGGTAGATCATGGCTCTTTTCAGAATATTTTTAGTAGCTTGGTTTGTAGCCTTTCTTAGTGTCAGGAAATTGAACCCCATCCTGAGAGCCCTTGAGGAGCTTTGAAGCTAGTACTGTGAGCATTAAACTGAGCAGCATCTAGGCAATTAAAGGAAATGGATTTTATATAGTTTGGAGTGGCCTGAGCTACTTTCTCTTGTGCTTGTTTTGGATATTGCTAATCAGGTGTGTGATGTTTACCTTCTGGCAATAG
Seq C2 exon
GAAGTGGACTCCAGGTGGCAAGAATACCAAAGCCGAGTGGACTCCCTCATTCCCTGGATCAAACAGCATACAATACTGATGTCAGATAAAACTTTTCCCCAAAACCCTGTTGAACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127603-MACF1:NM_012090:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.025
Domain overlap (PFAM):
C1:
PF0030726=CH=PD(22.5=63.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATGTGCCATCTCCAGAT
R:
TTAGTTCAACAGGGTTTTGGGGA
Band lengths:
222-772
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)