HsaINT0098107 @ hg19
Intron Retention
Gene
ENSG00000127603 | MACF1
Description
microtubule-actin crosslinking factor 1 [Source:HGNC Symbol;Acc:13664]
Coordinates
chr1:39549035-39550110:+
Coord C1 exon
chr1:39549035-39549089
Coord A exon
chr1:39549090-39549838
Coord C2 exon
chr1:39549839-39550110
Length
749 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TTCACCCCTTTCTCCTTCAGATC
3' ss Score
12.76
Exon sequences
Seq C1 exon
ATGAAGAAACTGAGTCTCAGAGAGGTGAAGTGACTTGCCCAAGATCACAGCAATT
Seq A exon
GTAAGTGGCCAAACCAGAATATATACCCAGGTCTGTCTTACTTCAAGTCTGGTACATTTTCTAATATATCTGCTGGAGACAGAGTGGGAGAAACCAGAGAATTTCTGCCTATTCTAGCCCATGGTTTGCTTCTTGCCTGCTATTGAGATCATGCTTTAGCTTTTTGAAAATACTTCCCATCTGTTGCCCCACTTTATCCTTATAGCATTCCTGGGAGGTAAGTAGAACAGGAATATAATAATAGATACTGTGTATTGAGTGCTTACTGGGCAGTGGGCACTATTAAGCACTTTACATGCAGGATTAAGCACTTTACATGCAGAACCCAACCCTATAGGGCTAGGTTCTAACTGTCGTCATCCCCATTTTGTAGATGAGGGTGCTGAGGCTCAGAGAGATTAAATGGCTTCTCCAGGGTCACACAGCTAGTAAATGGAGTAGAATTTAAACCCACAGCATTCTGTCATGGGATCTGTGAGCTTAATCCTCCAAATGTGCCAAATAGCAATAATAATAGTTCCTAGGAATAGGAGCTAACTTTTACATGATGCTTTAAGATTTATAGACATCATCACATATAATATCCCCCAAACCTCATGAATTAGTTTTGGGATGTATTGTCTTCATCCCATTTTCCAGGTGAAGAAACTGAGGTACAGATAGGCAGGACTAGAACCTCTGCTTCCCAAGTCCCAGTGTTCCTTATGGGACCCCTTTTGTCTGCTCACATTCACCCCTTTCTCCTTCAG
Seq C2 exon
ATCACTTCTCCCTGGGCTCCCAGGCCCTCCTGCAGCAGCCCCCGCCTGGGCCATGTCTTCCTCAGATGAAGAGACGCTCAGTGAGCGGTCATGTCGGAGTGAGCGGTCTTGTCGGAGTGAGCGATCTTACAGGAGCGAGCGGTCGGGGAGCCTGTCTCCCTGTCCCCCAGGGGACACCTTGCCCTGGAACCTGCCACTGCATGAGCAGAAAAAGCGGAAAAGCCAGGATTCGGTGCTGGACCCTGCAGAGCGTGCTGTGGTCAGAGTCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127603-MACF1:NM_012090:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.851
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGAGGTGAAGTGACTTGCC
R:
CAGCGACTCTGACCACAGC
Band lengths:
310-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)