MmuINT0005281 @ mm9
Intron Retention
Gene
ENSMUSG00000006204 | 5430419D17Rik
Description
RIKEN cDNA 5430419D17 gene [Source:MGI Symbol;Acc:MGI:1918645]
Coordinates
chr7:138372303-138373512:+
Coord C1 exon
chr7:138372303-138372493
Coord A exon
chr7:138372494-138373482
Coord C2 exon
chr7:138373483-138373512
Length
989 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TAGTTTTCTTGTTTTTGCAGAGA
3' ss Score
7.88
Exon sequences
Seq C1 exon
CCTTGACTGCACCAACGAGTATTTTGAAATCCTGGATGGCCCTCCGTCCTCCACAAAATCCCTGGGGAAACCCTGCCGTGGGTTGCACATCACCTTCGCATCTCACTCCAGCTCAATGACCCTCGTGTACTTCCGAGGTGAAAACAACATTGGGAAAAACTTCATGGCATATTATTATTTTGAAGCCAAAG
Seq A exon
GTAAGACGATGGCACAGAGTCACCGCTCTGCACTTCCTGGTGATATGTCATCATTTGTTCTGTGACTTTGGACAAGACACTTGACTGATGGCGAATCTGTTGTGAGGATTCATACAACAGAAGCTGGGTCATTAGGGAGTCATTTCCGATAATACTTTGTCTCTGGTCCCAGATGGGTGTTTTAGATGGTACAGAGAAAGGGAACATGTTCCCTGTAGGACCTCTCTCAGTCTTGTGCACACTAATAAGGAGGTCAAGATGTATATACAAGATGAAATTGGAGGGTAAATGGAATATCCTAAGTTAAAGCAAACCAATAAAATATTGTGTGTGCTAGAATATGCTGCACAGACACACATGTGCACATCAAAACGGGACAAGAGAAAAGACAGGATCACTATTGGCTGCAAACACCAAGGAAAACACCAGGGGAATATTCATTTTTAATTTCCCTGTGACATTAGGTAGGCTGTTCATAGAGAAACAACAAGAGAACTCATGAGGAGTAAGATAAGTGTTGGAAATGAGTTGCAGTGCATGGTGGGAAGGCAGAGGCTAAGTTGAGGGTCTCTGTTAAAGCACAGTATACACAAGTTGGTAAGATCAATGAAAAGAATTGTGAAATCAGTTAAAACAATAACATCCATCTGCTAGAACAGAAAAGCTCCTTGCCTGTGTTATGCTTACACAGGCATCTCACTCCAACTCAATGCTTGGTCATTCTTTTTTACAGAGGGGAAACTGAGGTCTCAGAGGTTCAGTAATTACCTAGGGTTCTACTCTACTCTCTACCTATAAATACCAGTGAACCCTTATATCTGTTTTGTCTAAGATGGTGTTAAGAACAGTCCCCACAGCCTTTAGAAAATGATGGGCTAACTACCGAGCAAGCTGTAAGACAGAGGAGATGCTCTGTACCAAACGATGGATCATATGTCTCCATAATTGGGATGATATATCTGTTGACTGTAGTTTTCTTGTTTTTGCAG
Seq C2 exon
AGATGACAACAAAGACCCCGTATCTGATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006204-5430419D17Rik:NM_175166:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(55.8=89.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGACTGCACCAACGAGTA
R:
CAGATACGGGGTCTTTGTTGTCA
Band lengths:
217-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: