MmuINT0032019 @ mm9
Intron Retention
Gene
ENSMUSG00000025461 | Cd163l1
Description
CD163 molecule-like 1 [Source:MGI Symbol;Acc:MGI:2443796]
Coordinates
chr7:147408056-147409423:+
Coord C1 exon
chr7:147408056-147408349
Coord A exon
chr7:147408350-147409114
Coord C2 exon
chr7:147409115-147409423
Length
765 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
AGGGATGTCTACCCTCACAGGAC
3' ss Score
5.71
Exon sequences
Seq C1 exon
ATGGCACCTTCCGGGAGATCCGGCTGGTGAAGGGCCACAGTCCCTGTGCAGGACTCCCTGAGATCATGAATGTGAATGGGGTGGACCGCCTCTGTGGCCTGCATGTGGAGGAGGCCACAGTGTTTTGCCGTGAGCTGCAGTGTGGCCATGCACTCCAGGCCCCCCGTCAAGATGTGGGCGTCAGTAAGTACATGACCTGCAAGGGCACCGAGTCCACCATCCGCAACTGCAGACTCAACAACAAGCTACGCGGTGGCTGCAACCTGCTGCTGGATGCAGAAGTCATCTGCTCAG
Seq A exon
GTAAGCCTGCCATCCAATGATGCCAGGGACACCCAGAATGAGGCCTGGGTACCAAAGAGCGCATCAGTGGGCCACGGCTCTCATGGATGGTTCTCAAGCAGTATGCTGCCTTAGAAACAGATTAAGTTGGGGACCTGAAGGAAAATCGTAGTTTTGAATTCTGCATTGAAAGCTCTGGCACCAGCCGTGAGCTGGCAGATGACAGTGTGACCAGGTCTGATGTATCACTTCAACAGGGTGGGGTTGGGCCAGTGTGGTGCCCTAGCTTAGACCTTTGGGAAGGGAGTCCTGACAGTATGGATCTAAGGTGTTTCATCTGTGTTTGCTTCACGGCCAATTCATGTTGGTGAGGGTTGCGTACCAGTTTCTCCTAGTCCTACAGTACACATGAGACACGAGGGATACTGGCTGTCAAAGTTGTTTGACTGTGTTCTACGTAAGAGGTGCCACCCATCATGGTGCCCACAAAAGGGTACTCATATGGCCTCGGAGGCTTGATATTGCCTCTAAGGGTGTGGGTGCCACTGTCTCAGACTGGCAGAAGTTGGGACAAGTGTGAGTGGCAGAACGAGTGAGTCTGACCACTGACCTCTGACCCCGGCCTCTGAACCCTGACCTCTGATTGCCAGTTTCTGCTGGTTTCCAAACACTGCTTGGGCAGAGGAAGTTCCTTGCCTGTAGACTCTTGTGTAAGATGACAGATAGCTCAGCACTACTGTCCCAAGAGTACTGGCCTCCTGTCTGAAGGGATGTCTACCCTCACAG
Seq C2 exon
GACACGTGGAGGCCCGGCTAGTGGGTGGAGAACATTCCTGTGCTGGACGCCTGGAGGTTCTTCGGGGACTGACCTGGGGTACCATCTGCCATGCTGATCTGGACTTGCCCACAGCCCATGTGGTGTGCCGGGAGTTAGGGTGTGGTATAGCTGTGTCTACACTTGGGGGTGCTCAGTTTGGCCAGGGCTCAGGACCTGTGTGGCTAGAAGCCTTCCGCTGTGTGGGGAATGAATCGCTGCTATTCCACTGCCCCCGGGAGCCCGGTCACCACTGTGGCCACGAGCAGGATGCTGCACTCACCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025461-Cd163l1:NM_172909:3
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=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=89.9)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATGTGAATGGGGTGGACC
R:
CTGTGGGCAAGTCCAGATCAG
Band lengths:
342-1107
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: