MmuINT0044252 @ mm10
Intron Retention
Gene
ENSMUSG00000040205 | Cuzd1
Description
CUB and zona pellucida-like domains 1 [Source:MGI Symbol;Acc:MGI:1202881]
Coordinates
chr7:131316608-131318152:-
Coord C1 exon
chr7:131317938-131318152
Coord A exon
chr7:131316759-131317937
Coord C2 exon
chr7:131316608-131316758
Length
1179 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
TCTTTGTATTATCTTTCTAGTTA
3' ss Score
7.71
Exon sequences
Seq C1 exon
GTTGGATCCAGGCAGCAGGTGTGAAACTGAAAACATTAAGGTGTTTGATGGAAGCTCCACCAGTGGGCCTCTGCTAGGGAAGGCCTGCAGCAGAAATGATTTCGTGCCTGTGTTTGAATCATCATCCAACTCGATGACATTTCAGATAGTCACTGGCTTGACAAAGTTCCCAAGGAGTGTCTTTATCTTCTACTATTTTTTCTCCGCTGCTACCG
Seq A exon
GTAAGTTGTCCATGACACATTCTTTCCCCTGCCCTTCGCAAGCGCAGGTTACACCAGGTCCTGCTGGGGACACGGTGCTCTTGAATCTGTTCCCTCACAGTCTTCTCTGTGCCATGCACAGAAGAGTCACGTGTTCAGTCGCCATGTTTGAAATCTGATTCTTTGGGTCTGGGGAAGCTCCTGATGCAGTTCCCCTGGCTCACCACACAGCTTCAGGTTAGCAGGCACTGTGTCTGCGCCCAGAGGGCTCTGTTCAGCCTGTTTGATAACCTTGAGACCTCCGCGACAGTCATTAGACGTGGTTTGAGGCTCTTGAGCTTTTGTGTATCCATCAAGTTCTTCCGACAACCAAGCAATTGTGGGTGAGGCTGAGCCAGTTTTAGGGCAGTCGGGTGCTGCACAATTCTATGACATTGGCCCCCAATTCCAGTTTTACCTTAGGTAGAACGCCATGGGCTTGAGCCAGCAGGTTCATAAGGAGAGCTTCACTCTGGTTTTCTAGAAGATCTGATCTTGACACTGATATCTTTGTGCTACAGAGCCAACAAGGTAGAGGCATCAAGCTCTTCTGGAGCTGGACACAGGCTACCTCCTCACACCTGACGTGGAGACCCTACTTAACATAGGTCCTACAAGTCCACCAACCTAAACTATTTTATAGCAACCTAGGGGTCTTCCGTTTGCTTCTGTGTTTATTTGTCATGTTGCCCATTACAGTACCTATCATGTCAGGGAAGGATGGAGGAAGGTTGCATCTGAGCTGAACTTTGAATACTAGCCCGAGGAGAGAATAGCAGAGGACGCTATACTGAAGCCCTAGCAGACATGTTAAGAAAGGGCACTTTAGAACAACAGCTCCTTTGGTGATAGCCAGTGAGCCTGGACAGCAACGGTGGGTGAGGAGCCTCCAGCACTCGCCCCAAGAGTGTGACTACTTTCAGGAGCTCAGTCCAGGTGGGAGGGCCTCTGTCGCCAGTTCAGTCACTTTGCATGATTTGACAGCAGGGCAGCACTATGCTCTCAGGTACCCCAAGGCAAAAAGGTCTGATGCTAAGAGAAGAAGAAGAAAACCTCCAATGTGACTCACAGAGGAGACAGGGATGGTGTGACACTCAGGGAGGACAAGTTAAACTCCATACATCACAGAAACATCCAATCATCTTTGTATTATCTTTCTAG
Seq C2 exon
TTATTCCAAACTGCGGTGGTGACCTGCGAGCATTGGAAGGGTCCTTCAGCAGCCCCAATTATCCAAAGCCGCACCCTGAGCTGGCATATTGTGTCTGGCACATACAAGTGGGGAAAGGCTATAAGATACAATTGAAGTTTACAGATCTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040205:ENSMUST00000046611:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(68.8=87.7)
A:
NA
C2:
PF0043115=CUB=PU(42.2=90.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGATCCAGGCAGCAGG
R:
ATCTTATAGCCTTTCCCCACTTGT
Band lengths:
342-1521
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