HsaINT0100293 @ hg19
Intron Retention
Gene
ENSG00000015479 | MATR3
Description
matrin 3 [Source:HGNC Symbol;Acc:6912]
Coordinates
chr5:138661129-138661973:+
Coord C1 exon
chr5:138661129-138661351
Coord A exon
chr5:138661352-138661851
Coord C2 exon
chr5:138661852-138661973
Length
500 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
ATGTATGTTTGTATTTCTAGGTA
3' ss Score
9.75
Exon sequences
Seq C1 exon
GTGGACAAGATCGAGGAACTTGATCAAGAAAACGAAGCAGCGTTGGAAAATGGAATTAAAAATGAGGAAAACACAGAACCAGGTGCTGAATCTTCTGAGAACGCTGATGATCCCAACAAAGATACAAGTGAAAACGCAGATGGTCAAAGTGATGAGAACAAGGACGACTATACAATCCCAGATGAGTATAGAATTGGACCATATCAGCCCAATGTTCCTGTTG
Seq A exon
GTGAGATTTAAGTCTTTGTTCTTCACCTTCCTCACTCTCCTCAAAACAAACTCTTAGGTTTTAAAATAAGATTTTAAAGTTGGTCTTACATAAGCTGTGATAGCATTTTAAATTTGCTTTGTTTCTATGGGGAACAATTTATAAATCTTAATTGATATATTTTCCTCTCATGCATGTCTCTGATTTTGTATTATTTTCTGTTGTTATTCCACAATGTGTTCCCTTTTTTCGTAAAATTTCTTGCAAGTTACACGCTTTTGTTTTGCTTTTCTGTGTTGTTTTTCTGTATTATATTTCTTTTTTTAAGAATACAGTTAGGTGAGACCTCAAACATCAATTAGGTAAAAGCAAAATATGGTTCGGTTTTTGTTTTTTATCTTAGGCTGTATTGGACTTCTCAAAAACATGTTGTTTCATTTAAATTATGTTGACAGGTGAAATTGTGAATACTAAATAAAATCTTCAGTTTAATTTGTAAGAATGTATGTTTGTATTTCTAG
Seq C2 exon
GTATAGACTATGTGATACCTAAAACAGGGTTTTACTGTAAGCTGTGTTCACTCTTTTATACAAATGAAGAAGTTGCAAAGAATACTCATTGCAGCAGCCTTCCTCATTATCAGAAATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000015479-MATR3:NM_001194955:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.058
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF121713=zf-C2H2_jaz=WD(100=65.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGACAAGATCGAGGAACTTG
R:
TAATTTCTGATAATGAGGAAGGCTGC
Band lengths:
342-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)