MmuINT0042450 @ mm9
Intron Retention
Gene
ENSMUSG00000042401 | Crtac1
Description
cartilage acidic protein 1 [Source:MGI Symbol;Acc:MGI:1920082]
Coordinates
chr19:42357527-42358756:-
Coord C1 exon
chr19:42358613-42358756
Coord A exon
chr19:42358171-42358612
Coord C2 exon
chr19:42357527-42358170
Length
442 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TTTTGTTTGTTTTTTTGCAGCTC
3' ss Score
11.1
Exon sequences
Seq C1 exon
ACACCAATGAATGCATCCAGTTCCCATTTGTGTGCCCTCGAGACAAACCCGTATGTGTCAACACCTATGGAAGCTACAGGTGCCGGACCAATAAAAGATGCAATCGGGGCTATGAACCCAATGAAGACGGCACAGCCTGTGTGG
Seq A exon
GTAAGTGGAACCCTGGCCACATTCAGTAGCAGAAGACACGTGCCTTGTGCTGGGGAGTGGCAGGGAGGGACGGGTGGCTCTGAGTGGGCTCCAGGCCACAGCCATTAGCCCCTGCATCGCCCTGGGTTGATAGGTGCTCCTAGACTCACAATAGTTCTCCAGTTGAGACCATGCCAGGCTTGGAGAGGCCCTATCACTCCTGTCCCACTGGAAGGGCCCCGGGGTAACGTGTCCTGGTCTTATCGTTATCCCACTACTCGTGGTCCTTGAAGCAAGTGTTTTCATAGCTGGGATGCAAATAGCTCCTCCAAGTCACCTTTGGCAGATAATTTCTGAATTAGTGTTTGTCTTATCCTTCCTCCCAAAATCCTTCCTCCCAACCAACCCTTTGTCTCTCCCCATTTTTTTTTACCTCCCTGCGCTTTTGTTTGTTTTTTTGCAG
Seq C2 exon
CTCAAGTGGCCTTTTTAGGTGGGTACTCATCGGCTGCCTTTAGACTCTCTGAGCCTCTCTCTCAGGCCTCGTATCTTTCTCTAGGCCTGGGACTTTGCCTTCAGTTATATGCACTTTAAATCCCATCAATAAAGGAAAAAAAAATCTAACAACCTTTGTGGAAAACTATATCTCTCCTGCTGCCTACCTCTCTCCACACCCCATAGATCCCGCCATGTGCTCCTTCGAACGGACAGCAGGGGTGGCCATCTTTGAAAAGGGAAGTTTGGGAGATACTGATGGGACCTTAGTTGTTGGTGAAGCCTTTCTTTGCATGTTTTCTGAGAAAACAGAAAAAGGAAAACTATCTCCTCTACCCCACCCCTCCTTCCGTGAGAAGAACCAAGAGAGTCCAGTCATTTCTGTATCTTCGTGAGCTTCTTCTTGTTTTGCCCTTGACAAAGATGGCTCCTGGGTGGTTGCTGGCTCGGTTGATTCAGTAATGTATCCTGTGCCTGCTGATCCGGCCTGTGCTGCTGCTGCTGCTTTGTACAACCTGATTTCCTATGATTACGGAAGCCTTATTGGATTGGTGGTGGCGACGGAAAGGGAAAGGGTGGCCCTTTGGGACTGTTGATAAAAAAAAAATGCTTAAGTTTGAACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042401-Crtac1:NM_145123:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGTGCCCTCGAGACAAAC
R:
GTCCGTTCGAAGGAGCACATG
Band lengths:
351-793
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: