MmuINT0060686 @ mm9
Intron Retention
Gene
ENSMUSG00000031813 | Fam125a
Description
family with sequence similarity 125, member A [Source:MGI Symbol;Acc:MGI:1920961]
Coordinates
chr8:74067286-74069249:+
Coord C1 exon
chr8:74067286-74067382
Coord A exon
chr8:74067383-74069122
Coord C2 exon
chr8:74069123-74069249
Length
1740 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGA
5' ss Score
5.52
3' ss Seq
CCCCCTGCCCCCACTCCCAGAGG
3' ss Score
9.07
Exon sequences
Seq C1 exon
AACCCTCAGGACAATGTGGTAGTGGACATGCAGATCGTGATGGACAAGGGCCCACTGCCGTCAGGCTTCTCTGCAGTCAACGACCCTCAGGATATCA
Seq A exon
GTAAGATCCGTGGGCACGGGAGAGCGGCAGGCACAGGGAACGGCTGCTAGTGTATGTTTGGAATAGGACTTAGCTGAGCAGGAAGGCACAACCTGTAAATGCAGAGCTCCGGAAGCTGAGGCAGGAGGATGGTGGCGAGTTCAAGGCCAGCCTAGGCTACAGAGTGAGGCCTTTATCTCAACCCACTACTCCAGAATTAAATAGTTGACACATACCTGTCTTAGCATTCAGGCTGAGGCAGCTTTGTATCCAGCCTGGGCTACAGAATGAGACCTTGCCTCAGCTCTTCCTAAGAATTTGAGCATAGTGGGGCATACCTGTCACTACATGAAACCCCGCCCCTAAACAAACAACAACCACCCCAGATGTCTTTGGCATACCCACCCTCTTCCTCACTGCCACTGGTCCCTGCTGCTTGTCCTCTGCTTCTGTGGCGGAGTGAGTCCTCCTGGCCATTCTCTTTTCCTTTCCAGGCTCTTGCACTGCGAGTCCACCTGGAACTGGCTTCCCCTGTTCTCTGCATAGCTCAGCCTCCCCTCTCCCTTCTCCCCTGCCTGACCCAGCTGCCCGCCTCCCCGATGGTGCTTGGTTCTCTCGGTGTCTTTAGTGACCGCTGGCAGGCTGCCGTGCAGAGGGTCAGGTCAGTGTGCAGACAGAGGAGGCGTCCACAAATTCTCCTATCCTCCTTTTGCAGCTGTCTCTTGACTTAGTGTTTAATTGGTTTGGGGGGACAGGGTCTCAATGTGTAGCCTCAGCTGGCCAGAGCTTCAGTCCCATGGATTCGTGGGACTGAGCCGTTGTGACCAGCCCCTTGTAATCTGCAAAGTGTGGAGACTGCTGTTCTTCATCCCAGTACTTGAGAGGCTGAGGCAAGAGGATTGCTTCCAATTCAGAGCCATTTTCGGCTATGTGATGAATTCCATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGGTCTCGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCCAGGGCTGGAGCATTAGCAGAGTTAGCAGAGTTCTTACCCAGTGTGCATAAAGCCTGGCTCCATCCCCAGCACCACACCAACAGAGTCAAGAGGTTGAGGCAATATTGGGCATTCAGGGTCCTCCTCGGCTACATCTTGAGGCCAGCCTGGGCTACATGAGATTGTCTGATAAACACAAATATATGCACATGATAGAAAATAGCACCGGGCAGTGGTGGCACATGCCAGCACTTGGGAGGCAGAGGTAGGTGGATTTCAGAGTTCGAGGCCAGCCTGGTCTGCAAAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAAAAAAAACCAAAAAAACCAAAAAACAAAAAACCCTCTTGACCTCATGGACCACACACAACAGCTGTAGGTTGGACTTTTTAAAAGAGGAGTTCTGTGACCCCTTGGGTTATAGGACCAGGGAAAGTGAGGTTGGGGTGCTAAAATAGGTACTACATGGTTGATTCCACAGTCCCCCCCGCCCCCTGTCAAATGTCAATCTGTTTTACTGATTCCAAAAAAGTTAGTGAATCTCCTATTTATAATTTAGCCAGCTCCCCGGTGTGGTCCCTGTCAGTTTTGTCCCTACAAAGTACAGGCAAGCGTCTTCCGGGGCTCCCATTCCGGTGGTACACTCCCCTCTCTCACCCCCTGCCCCCACTCCCAG
Seq C2 exon
AGGCCTCTGTGTCCAAGAAGAAACGCATGTGTGTGAAGCTGATGCCCCTGGGGACAGCTGACGTGGTTGTGAGTGACGTGAAGCTGAGTGGGAAGACTAAGACCGTGCCTGGATACCTGCGTGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031813-Fam125a:NM_028617:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.424 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102404=DUF2464=FE(12.7=100)
A:
NA
C2:
PF102404=DUF2464=FE(16.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCTCAGGACAATGTGGTAGT
R:
CCCACACGCAGGTATCCAGG
Band lengths:
223-1963
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: