MmuINT1014679 @ mm10
Intron Retention
Gene
ENSMUSG00000109372 | Gm19410
Description
predicted gene, 19410 [Source:MGI Symbol;Acc:MGI:5011595]
Coordinates
chr8:35795468-35796382:+
Coord C1 exon
chr8:35795468-35795650
Coord A exon
chr8:35795651-35796166
Coord C2 exon
chr8:35796167-35796382
Length
516 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TTGGGCCTTTTCCATTTTAGGGG
3' ss Score
11.03
Exon sequences
Seq C1 exon
ATCCTGGGCTTAAGGAACCAGTGCCCACTACCCCTTCCCTTCCTCCTGTTCTCTGTGCCCGGTCCTCTGTCCCCTGCCAGGATGGGAAGGGCTGCATTCCCAGGGAATCCCTCTGCAATGGTGAGGCTGACTGTCAGGATGGCTCGGATGAAAAGAACTGCTCCCAGATCTGCCATCAACCAG
Seq A exon
GTTGGTAATCCCTATGTCTGGCCTTTTGCCAGGGTCATCTTCAGGCCCATGATAGGAATTCCCAGAGTATGTTTTTAAATCTGACCTCCCAACTTCCTCTGGACAAGTCTGCATGTCATTATCTGTTGGAATATCCATCCCCTAAGGACACACTTCATCCATTTGTCTATGTGTGTTGCCTGCTTGCTTCCTTAAATTTGCTATGTGTTTCAATATTTGCCAAGTGTTTCAATATTTGCCTACTTATCGGCTGGTCCATAGAGTGACCTACATTACCACTTATGAGTTGGTAATCATTTAGCAAGTTGTCAAAGCAATTATTTAAATGACTTAGTTCAGGTTAATAACATAATTGACCCGAGCAGGTTATTAAGCTGCCTTGTGTATCTTCTAGACATTAAAACTCAGATACGTGGGATGCACTTTGTTGAACCCTCAGACTCCGGAACACATGAGTTCATCTCATTTAAAATCTTCCTCCTGACCAATTTGAGTCTTGGGCCTTTTCCATTTTAG
Seq C2 exon
GGGTCTTCCAGTGTCTGGATGGAAGCAGGTGCATAGAGGAGAGATATCACTGTGATGGGGCTCAGCATTGCTCTGATGGATCTGATGAGCTGGACTGCTGGAGACCCGCTGATGACTGCTCGATGCACTGTGACAACAAGACCCGCTGTATCCCTAAGAGTTGGAGATGTGATGGGAAGCCAGACTGTTTGGACAGAAGAGATGAACAAGGATGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000109372:ENSMUST00000207505:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=61.3),PF0005713=Ldl_recept_a=PU(15.4=9.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(82.1=43.8),PF0005713=Ldl_recept_a=WD(100=47.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACCCCTTCCCTTCCTCCTG
R:
GTCCAAACAGTCTGGCTTCCC
Band lengths:
350-866
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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