MmuINT0060444 @ mm10
Intron Retention
Gene
ENSMUSG00000037962 | Rflna
Description
refilin A [Source:MGI Symbol;Acc:MGI:1920371]
Coordinates
chr5:125010372-125012547:+
Coord C1 exon
chr5:125010372-125010481
Coord A exon
chr5:125010482-125011271
Coord C2 exon
chr5:125011272-125012547
Length
790 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
TTTGTTATTGCCCTCCCCAGCTG
3' ss Score
7.57
Exon sequences
Seq C1 exon
GCTCCTTCCCTCTTCCAAACTCCCCCAGCTCTGGAGATGAGGTCACGGTTGCTGCCTGTGTTCTTTGGGGAGAGCATCGAGGTGGACCCAGAACCCGCACATGAAATCCG
Seq A exon
GTAAGTAGGCCAAGAGCGAGGTGGGTGGGTCCCAGCTCAGGGAGTGTGCTGGGGAGCTGGGTGCAAGGTGTAAGACAGGTCTCACCTAGCTGGAGGGAGGCGGGGGTCATGTCTGGCTGTGCGCAGCCAGCCAGCTGGGGCCTCAACTCATACTCCCTGGTGCTGTGTCCTCTGCTTGGTATCAAGTCAGAAACCATGGAAGTGGCACTGATGTCACTCACTTGTCCTTCTGAAGAGGGAGCCACCCACCAGGAGGGGCTGTGGGGACTTTCAATAGGCTTTCTTCTGGTAAAGTTGGGAGTAGACTTTAGGGGGGGCACTCGCTCTGCTCTCCCACATGACCTTTTAACATCGTTGGCCCCCGAATACTGAAATATGCTCCAACACCACACATATTCCTCTGTGGTCACAATCCACTGCCACAAAGCCACCACCCAAAAACACCTATCATCCCGATCAATCCTTTCTTGTCTCTCTCCCCAATTTAGGGTCCAGCGGTCTGTGCTGTGTGTCACTCTTTAGTCTCCCAGCTGGGATCCCTCCCCTTCCCTCTTCCTGTCTCCCGCTCACTCTGGCCCACATTTTTTTTTTATTTGTTTCTCATTACGGATGGTTGTGAGCCATCATGTGGTTGCTGGGAATTGAACGCAGGACCTCTGAAAGAATAGTCGGTGCTCTTAACCTCTGAGCCATCTCATCAGTCCCCCAGCTGGGGATTCAAGGTCGAGAAGGCTAGCCACTGAGGGTGGCGTGGCGGGCAACTCACCCCCTTTGTTATTGCCCTCCCCAG
Seq C2 exon
CTGCAACTCTGAGATCACCTACGCCTCAGAGAGATACTTCCGAGACAAGATCTTCTACGCTCCAGTGCCCACGGTCACGGCCTACAGTGAGACCATAGTGGCGGCGCCCAACTGCACCTGGCGGAGCTACCGCAGCCAGCTGACCCTGGAGCCTCGCCCACGGGCCCTGCGGTTCGGGAGCACCGCCATCATCTTCCCCAAACTGGCCCGCAGCTCCTTCCGCACCACCCTGCACTGCAGCCTCGGCCAGCCTCGGCACTGGTACTCCTCCAGCCTGCAGCTGCGGCGGTGCGGGGACCCTACGCCCGGTCCCAGCTGTCCTGATGTACTCTGAGGAGTCCAGTCTCTGAGGAGGACCTGAGTGTGGGAGAGGTTCAGGAAAGATGGCCCGGCTACCACCACAGGTTAGGCTGGCTGTGCCGGAGCTCCAGCCTAGAGGAGTCTGTGAATGCATCTTTCATTAGCCTTTAGAGGCTCTATGGCCTTAAGGGCAGGGCCAAACATGTCCTGGTGTGCCCTTGAGGCAAAGATGGCCCTATGTAGCACAGGGCACTCAGCCATGGCCTGGCTCGAAACCTCATTCTTGGAGAGGCTTGTTTCCAAAATAGGCCATTAAAAAAAAAAAAAAAACGCTCATTCCAGCTGAGAACCGCAGGTGCGTGCGGAGGGGTTGAGCTAACTTTACCTTGACCTGAGATGGCAAAGGCTGGGGGTACCCAGAACACATTGTCTGCTGTGCAGGGCGCAGCCCTCCAGGGCGGCCCACATGTGCCCCACAAGACGCATTCCAGACTAGCTTAGAACTCTTGAGCCTCAAAGCTCTCTGGCAGGTGCCCTGGGAGGCGTCAAAGCAAATGAGGGGACACGGCCAATAACTGCCTATGGCTGACTCTGGACTTGAGCCTATGGCAGGGCTCAGAACCCCAAGAGAAGCGGAGTCTGTTTTTCTTGGCCTCCCGTTCTTGCTTAGGATGGATCCTACAGTTACACCAGTTTCCCACAACCTGGTGCTGTCCCATGGTGCCCAGGCTAAAATGAGTCCCCGAGTCTACTTTAGAGGTGGAGATGTCCCTTTGTCTCAATTGTCCAGTAGCTAGAAACCTACCTACTGCCGCTGTGGTGGCCCAGAGGGAAGGGACATTCTTTGTGGGGCAAACAGAACCTAAATGACTGATAGATTTCTGTTCATCTATTAGCTTATCTGAGGTGCTCCCTGGTTAAAAGAACAGCCTAAGAAATTAGTGAATTATCTTAATAAAATATACCCACACAGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037962:ENSMUST00000036109:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.243 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF150681=FAM101=FE(18.8=100)
A:
NA
C2:
PF150681=FAM101=PD(51.0=87.5)
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:
CCCAGAACCCGCACATGAAAT
R:
TACATCAGGACAGCTGGGACC
Band lengths:
352-1142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types