HsaINT0098150 @ hg19
Intron Retention
Gene
ENSG00000127603 | MACF1
Description
microtubule-actin crosslinking factor 1 [Source:HGNC Symbol;Acc:13664]
Coordinates
chr1:39893633-39894998:+
Coord C1 exon
chr1:39893633-39893959
Coord A exon
chr1:39893960-39894913
Coord C2 exon
chr1:39894914-39894998
Length
954 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTC
5' ss Score
1.5
3' ss Seq
ATGGTATTCTTTCCTTTCAGGCT
3' ss Score
9.51
Exon sequences
Seq C1 exon
GCTCTGGAAGAAGACATAGAAAACCATGCAACAGATGTGCACCAGGCAGTCAAAATTGGGCAGTCCCTCTCCTCCCTGACATCTCCTGCAGAACAGGGTGTGCTGTCAGAAAAGATAGACTCATTGCAGGCCCGATACAGTGAAATTCAAGACCGCTGTTGTCGGAAGGCAGCCCTACTTGACCAAGCTCTGTCTAATGCTAGGCTGTTTGGGGAGGATGAGGTGGAGGTGCTCAACTGGCTGGCTGAGGTTGAGGACAAGCTCAGTTCAGTGTTCGTAAAGGATTTCAAACAGGATGTCCTGCACAGGCAGCATGCTGACCACCTG
Seq A exon
GTATTCATGTTTCCATTTTTATTGGTTATGTTATTCTGTTATTTTGTTATTTTGATTCATGTTTCTCTTCATTTATTTTTTTTTCTTCATTACAAACACTTCAACTTTATTTTATACACAAGTGCATAGTTAGTGGACTTGATGCTGACTGCTAATCTGTTTTTGGATGAGTCCATGGAAATACTTATATTTAACAAGTTAAATCAGTAATTCTAGAAGATGGTACAGGGTATATAGTCAGGGGCCATCTGAACTCCAACTCATGATTTACATTATTAGGTGATGGGTCACTAAGATTCTATTTGAGCAGTTTTATGAAAGATAATGTGCTTTAACAAAACCAGATCTATCTGTGTAGTGCCCAGGATTTGATCATACAGTTAAAAAACTTTTAGGATATTTCTGGATTTGTTCAAATTCCGGGGATTCTGTGTCATCTTAATAGAAGAGTTTGCCTTTTTCATTTCATTTTTATGAAATCTGTTTGGGAGAGTAAAAATAGGTAATTTTTCTAATAGTCTGATTCTTTTGCTTCGTCAACTTTAAATATGAAGAGAGTTTTTAACCAGGATTCTGATTTAAGTCAGTCTGTTCTTACTGAATTTCTTCTCTTGAACTTTCTGTTTATTCCTTATTTTGGACACAGTAGACAATTTTGCTCAATTTCACTTCTGCCTTTCTTGGGTTCAGGTTTGGTACCAATAATTGGTAAAGCTGATGTAATTCTAAGTTTTTCTCATCCAGCGCATAGGAAAGCTTGCCTATAGGTATCTGATTTAATTATTTTGAATAGTCAATGGGCTAACCAAGGAGAAGATGAGGGGATCAAATATCTGATGTTTAAATTAAACTAGTATTCATCTCTTTACTTTAAATTTGATCTCTTAAAGGTCTCGCATTTTGTTTCATTTGTAGTGCCACAGTTTCAGGATTAATGGTATTCTTTCCTTTCAG
Seq C2 exon
GCTTTAAATGAAGAAATTGTTAATAGAAAGAAGAATGTAGATCAAGCTATTAAAAATGGTCAGGCTCTTCTAAAACAAACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127603-MACF1:NM_012090:59
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.005
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(57.0=56.0),PF0043516=Spectrin=PU(41.1=40.4)
A:
NA
C2:
PF0043516=Spectrin=FE(26.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCTCTCCTCCCTGACATC
R:
GGTTTGTTTTAGAAGAGCCTGACC
Band lengths:
346-1300
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)