MmuINT0032016 @ mm9
Intron Retention
Gene
ENSMUSG00000025461 | Cd163l1
Description
CD163 molecule-like 1 [Source:MGI Symbol;Acc:MGI:2443796]
Coordinates
chr7:147415644-147416374:+
Coord C1 exon
chr7:147415644-147415781
Coord A exon
chr7:147415782-147416198
Coord C2 exon
chr7:147416199-147416374
Length
417 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
TTCTTGGATGGTCTCCACAGGTG
3' ss Score
7.53
Exon sequences
Seq C1 exon
CTCCTTCCCTGACCCCTCCATCGGTTGCCGAGGTCTGGAAACTGTCGGAGATTGCCTGCTTGGTGCTTGGCTGCCTTCTGGGCATTGTCTTCCTGGTTATGATTGCTCAGTGGTGCCACATCAGAGATGCTAGCATGG
Seq A exon
GTATGGCATGTACTGGTATGGTTTTCAGGGGAAGTGTGATAGAAAATTGGGGGATGTTCTATGAGATCCTGAACCCAGCAGGCATATCTTGTTCTTGGCATTGCCCTGCATTTCTGGCAGGCCCCTGGCAACCACTGTTGAGTTAGATTCTGAGGAACCCTAAGGTGTGGTCTAGAGGATACTGGGATCTTTTTCTCTATGCTACTGAGTTGGCTAGATATGACATTCTGCACACCCAGGACTTCTCCATGCCTCTGTCCATCTCTTGTGCTGTCTTGTGGTGGGATGCCAGACCTTTGAGTAAATGGTTGATCTCAGTGAGCACTTACACCACACACAGGAGGCTGCAGGTCTCAGGAGGGTGGGCTGAAACTAGAGCAATGCTTGTTCTGGAAAATTCTTGGATGGTCTCCACAG
Seq C2 exon
GTGCTGGCATGTTGGGGCATCTACAGTCAGAAGGTATCTATGAGGACATTGAAGTTGACCCTGTGCCAAAGAAGGAGGAGAACACAGTATCCAGGCTACTGATGCTGGAAGAGGGTTATGATGATGCTGAAGAGCCTGAGGATCAGCCCACAGAGAATGACGAGTAGAATAGGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025461-Cd163l1:NM_172909:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.527
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCCCTGACCCCTCCATC
R:
GCCTATTCTACTCGTCATTCTCTGTG
Band lengths:
310-727
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: