MmuINT0001111 @ mm9
Intron Retention
Gene
ENSMUSG00000026931 | 1700019N19Rik
Description
RIKEN cDNA 1700019N19 gene [Source:MGI Symbol;Acc:MGI:1914757]
Coordinates
chr19:58862025-58863787:-
Coord C1 exon
chr19:58863569-58863787
Coord A exon
chr19:58862212-58863568
Coord C2 exon
chr19:58862025-58862211
Length
1357 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
CCTTGCTGTCTCCTTTACAGAAT
3' ss Score
11.31
Exon sequences
Seq C1 exon
GCTTCATACCATGGCTCAGTTGCCAGGAAAGCTCCAGCGAGGACCGCATGAATCCCTGTGTGAAAGCGTTCCAGGAGAGAACGCAGAGATACAAGGAGGACCAGCAGGGATTAAACTGCTCTGTGGCCAACACCCCACCCCTGAAGCCCATCTGTTCTGAGGACACGGTCCTGTGGGTGTTGCATGAGTATGCCAAGAAGTACCACCCCCTGACTCTGG
Seq A exon
GTATGGCCCTCCCCAAATCATCGAATCACCTGCGTGAGATCCCAGCAGGCCATTGTGCAGCCCGAATGAGCACCTAGTGCTCATGTGGAGGGGAAGGGACCAATGTGGAGGGGAAGGAGTCCATAGGGAGGGGAAGGGACCCATGGGGGCGGTTGGGAGAGGCTGACAGCTCCCTCAGAGCCCTTTCAACATCAGCTTATCTGTGGATTCCACTTTGAGAGTTTTCTCTAAGCTGGCTGTCTTTGTTCTCTAAGCAGACATGATAGCCCTGTGAGGATGACTCAGTCATTCTCCACTAGAGGCCCCTAGAGTTACCCTCAAGGGGTCACAGCAAGGATGCTGACAATTTGTCCTAGATTTGAATCCCACTGCTGTAGATACTAATTCTGCAGGAAGGGGTTTCACACAGAATGACCGATGACGCAGTGACAATTTAATGCAATTTTAAACTGGATTGTTTGTATATCTAAAGGGGAGAGAAATGGAGGGCCGGGGAATGGTTCAGTTGGCAGAGTGCTCACTGAACAAGCCTGAGGACACATTTGATCCCCCGCAGAGCAGATGTAAATAAGCCAGGTATGGCAGCCCATGACTGTCATCATTGCATAGGTGGGTCTCAGGGGCTTGCTGGCCAACTAGCATAGCCAAATTGATCTCCAGAGCCATTGCTGTATCCAGCCTCAAAAAATAAGGCATGACTGTCTAAAGAAGACATTCAGTGTGGACCTTTGGCCTCCACAAGTATGTGGACGCACACCGGCACACACACACACACACACACACACACACACACACCACAGAGTCACACTTAGTTGTTAATACTGAGTTGTTTAGATACTTATCCACAATGTTTAATAATTTATACGTGCAGAGCAGATGGACTAGGCATCCCCTAAGGAGCTGTCCAGCTTTGATCTGGAACTCAGTGTCTCACTTGGTTCTTCCAGCACATGAAGAAGGCAGTGAAGCTAGCCAAGGCCACCCTGACAATCACTGTGACCACCAGGACCTAATGTGCAGGGCCTTCTGGTTCTGATTCTGATATGCTTTCTCCCACCTGGAGACTCTGCTGAATTTAGGGTCCAAGAGCGGGTGTGCCCTGGACCTATTTTAACTGCTTCCTGGCTATGCCTCAGGACTTGCCTCAGAAGTAACACATGGAGCTATCAGTAGCATGTGCTTCCAAGGCTGCTGCTGAGAGAAGGAAAGGCAAAATCAGGAGAGAAGCTGGCACACAGTGAGGCCCTAGGTGTGGCCTAGAGGTTCCTGGGATATCTGCTCTTAAGCCAGGGAACTTGGGAGTTCTTTCCACTGTGCTTCTCTGAAACTCTCAGGACCCTTGCTGTCTCCTTTACAG
Seq C2 exon
AATGCAAAAACGAGAAGAAACCGCTGCAGGAGCCCCCTATCCCTGGCTGGGCAGGCTACCTGCCCAGAGCTAGGGTCACTGAATTTGGCTATGCCACAAGGTATACCATCATGGCCAAAAAGTGCTACAAGGACTTCCTGGATTTGGTGGAGCAAGCCAAGAGGGCTCAGCTGAAGCCATATGAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026931-1700019N19Rik:NM_026208:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.063
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCCTGTGTGAAAGCGTTCC
R:
CATATGGCTTCAGCTGAGCCC
Band lengths:
351-1708
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: