MmuINT0062068 @ mm9
Intron Retention
Gene
ENSMUSG00000026858 | Fam73b
Description
family with sequence similarity 73, member B [Source:MGI Symbol;Acc:MGI:1922035]
Coordinates
chr2:30223072-30224607:+
Coord C1 exon
chr2:30223072-30223307
Coord A exon
chr2:30223308-30224396
Coord C2 exon
chr2:30224397-30224607
Length
1089 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CACTTGTCTCTTTCCTCTAGTCC
3' ss Score
9.52
Exon sequences
Seq C1 exon
CTTTGTGGAAGGACCTGTTATGTGTGCCCCTGTCCTGCTGGGGAGTGGATGGTACCCAGGACCCAGCCAGAGACCAGCTGAAGACATTCTCCTTGCAAGCTCTCACCCCAGGAGGTCCCGTCTCGGGTGGTGGACCTACCATGGCATTCCGGAGGACTGAGGGTATGTCCATGATCCAGGCTCTGGCCATGACTGTGGCTGAGATTCCAGTGTTCCTGTACACAACTTTTGGTCAG
Seq A exon
GTAAGATGGGTGTGGTCCTCTCTAGGGGTCCTCATTGCCTGAGAGAGCTGAGTCCTTGTCAAGGCTATGTGGCTTAGTTAATTTCTTACTGTGTTATTATAATTCCATGTGTCTTAGTTAGTTTCTCATTGCTCTGTTGAAAGACCAAAGCACCTTAAGGGAGAAGGAGGTGATTTGGCCTCATGGGTCAGTGCATCACAATCCAGTGTGGAACGCATGGCAGCAGAAGCTGGAAGCTGGCTGGTCGCAGCATCTGTTCACAGGAAACAGGATGTCAGAGGGATGCTAGTGTTTAGCTCGCTTTCTCCATTTTTTACAGGGCATCTTGCCCTGCCCAGTAGTGGCCCCCTTCACAGATATGCCACACGATTTGAGCTATCCCTCACAGACAGTCTCAGATGCTAACATTGCTATAGGTAATTCTTCACAGGTGTGTCAGGAGGCTTGGCTCTTAGGAGGCTCTAGTTCTCTCAGGTTAACAGGCAACACTAGCTATCCTTATGTATATCTGGTATCGTTTCCCTAAGGAAATCAGGAGTACATAAAAGAACTGGGGCCCTAAACCCAGTGTTTACCCAAAGGCTAGGCAACCTCTTGACTTTAGTTGTCTCTAAGTCCCTTGACATGCCCTGCAGCTCTCTTTTGTGGGACAGAGTTCCACCTGGCCAGCAGCAGAGGGTGGCCTGTTTGGATGGGTGGTCTTGGTAGTGACTGTCATTGGGAAATGGAGTCATCGGGGTTTGAGCTGTATATTGGTCACTGCCTGCACACGCCTTAACTGATGTGACCCTTAGGTTCCTCGTTTGGCAGAGATTCTGACAGGTGACACGGTTCAGGCCCTGGTGCAGTGCACAGGCACAGAATGGTGGCTAGCAGTGTCGGGGCACACGGGACCCACCCCAGGATTCATCTCCTCCGTAATGCGTTAGTTATGCTATCTTTATATTTCTGATCCACATGTCAGAGAAGGTGACTTGATTTACTCTTCAGTGCCCCTTGTCACCCCTTCGGTCAGCAGAGGAATACTGTGGCCACACCCAGAGCTTCCCTTTGGACAACATAACCAGACCACTTGTCTCTTTCCTCTAG
Seq C2 exon
TCCGCGTTCTCCCAGCTGCGGTTGACACCGGGCCTGAGGAAGGTTCTTTTTGCCACAGCCCTTGGGACTGTGGCCTTGGCCCTGGCTGCCCACCAGCTGAAAAGGCGCCGGCGGAAGAAGAAGCAGGTGGGCCCTGAGATGGGAGGTGAGCAGCTGGGCACGGTGCCCATGCCCATCCTCATGGCCCGCAAGGTCCCTTCGGTGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026858-Fam73b:NM_175392:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.268
Domain overlap (PFAM):
C1:
PF102654=DUF2217=PU(0.4=6.2)
A:
NA
C2:
PF102654=DUF2217=FE(13.0=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTATGTGTGCCCCTGTCCTG
R:
GCCCACCTGCTTCTTCTTCC
Band lengths:
352-1441
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: