MmuINT0032018 @ mm9
Intron Retention
Gene
ENSMUSG00000025461 | Cd163l1
Description
CD163 molecule-like 1 [Source:MGI Symbol;Acc:MGI:2443796]
Coordinates
chr7:147406271-147408349:+
Coord C1 exon
chr7:147406271-147406603
Coord A exon
chr7:147406604-147408055
Coord C2 exon
chr7:147408056-147408349
Length
1452 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
ACTTGGGCTGTGCTTCCTAGATG
3' ss Score
6.47
Exon sequences
Seq C1 exon
GCACATCATCTGAAGGTGACCAAGGCAATCTGAGGCTGGCACACAGACAGAGCACATGTGACGGAGTGGTGCTGGTTCGACACCAAGGGGAATGGGGTCACCTGTGCAACCTGGAGTGGACACTGGCAGAGGCCTCTGTGGTGTGTAGACAGCTGGGCTGTGGCCCTGCTGTGGGTGCTCCCAAATATGTACCCCTGCCTGGAGAGATGGTCCGGCCCTGGCTGCACAATGTATCCTGTTGGGGCAATGAGTCCTCTCTCTGGGAGTGTAGCCTTGGGGCATGGAGTCAGCGTGCTTGCCCCCATGAGTGGGTGGTGGTGGCTCTCTGTGCAA
Seq A exon
GTAAGTGGAGCTGGGGGGCTGGAAGAGATGGTGAGAGGCAGGGAATGAAGAAGCAGAGGTTCCAGATAGGAGCACTCTGTTGGATGTTACCATCTCTGGTGTTCCTCTAACTTTTTCAACAAATGCTTAGATGACAAGCACTGTTCTAGGGGCTGGTGACTTAGCCATGCACAAACCTGAGCAAACAAAAACCTGAGCAAATGTGCTTGGTGGAGAATATGCTTCCAGGGAGAGGCAAAGAGAACAAGAAGAGCAAAGTGAAGGCCATGGGTGGTTCCCACTGATCTTGCAGTTGGCTCTAGGAGCACAGTAAGATGTACCAAAGTTTCCAATTAAATGACTGACAGGTAAATGCTGTCCCTTGGAAGCTGACTTTTTGGGCCATCAGCTATCTCTGTGAGTTCATTTGGACCTCCCATGTGTCCTGTGGCTGGAGTAGGACCGGTGTGATCTTGGGGCCTGGCATCAAACGGTGTTGTAGGCCTTATTAAAAAATGCTTGAGCTGGATGGTGAGGACACACCTTTAGAATCCCAGCACTTGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCCGAGGCAGAGGCCGAGGCAGAGGCCGAGGCAGAGGCAGAGGCCGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGAGGCAGGTAGATCTCTGATTTTGAGGTCAACTTGGTCTACAGAGTGAGTTCCAGGACAGCAGGGCTACACAGAGAAAAACAAAACAAAACAAAACAAAACAAAACAAAACAAAACAAAACAACAAAACAAAGCAAAGCAAAGCAAAGCAAAGCAAAGCAAAACAAAACAAAACAAAACAAAACAAAACAAAGCAAAACAAAATGCTTTAGGGGATGGATAGATGGCTTAGCACTTAAGAGCAAGTACTGTTCTGGAAGAGGACCTGCATTTGAATCCCAGCATCCACATAGAGCATCCGACAACTCCCTGGAAACCCAGCTCTAAGGAATCCAGTGCCTCTGCTATCCACAAGCAGGATCATGCCTATATAAAAGCACACACACACACACACACACAAAGATGATAAAAACAAAACTTTAATATTTGATTTAGACTTTTAAGAGGGTAACCATAGACACTAGTCTTAATGAAGCCTGACTGATACCAAGTCCTTGTTCCCTGAAGATGGCCAAGTCAGGGCTAGGCCTGATTTCTTGGAGAAGGGTAGACTAGTTTCAGTTGTCATTCCTTGTAGGCTTCTGGGCCTATCGTATGTGGCTGGGGAAGATGAGCATCACCATACAGACAGGTCTATCGTTCAGGCAAGTGCAGATTCCACGTGGCTGTGTGACTGATAGGTCCTCACCTTCTGTAACTTGGGCTGTGCTTCCTAG
Seq C2 exon
ATGGCACCTTCCGGGAGATCCGGCTGGTGAAGGGCCACAGTCCCTGTGCAGGACTCCCTGAGATCATGAATGTGAATGGGGTGGACCGCCTCTGTGGCCTGCATGTGGAGGAGGCCACAGTGTTTTGCCGTGAGCTGCAGTGTGGCCATGCACTCCAGGCCCCCCGTCAAGATGTGGGCGTCAGTAAGTACATGACCTGCAAGGGCACCGAGTCCACCATCCGCAACTGCAGACTCAACAACAAGCTACGCGGTGGCTGCAACCTGCTGCTGGATGCAGAAGTCATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025461-Cd163l1:NM_172909:2
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=87.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCGACACCAAGGGGAATGG
R:
CGGTCCACCCCATTCACATTC
Band lengths:
347-1799
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: