Special

MmuINT0044250 @ mm10

Intron Retention

Gene
Description
CUB and zona pellucida-like domains 1 [Source:MGI Symbol;Acc:MGI:1202881]
Coordinates
chr7:131320039-131322292:-
Coord C1 exon
chr7:131321966-131322292
Coord A exon
chr7:131320190-131321965
Coord C2 exon
chr7:131320039-131320189
Length
1776 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCAACTATGGTATCTACCAGGCA
3' ss Score
4.3
Exon sequences
Seq C1 exon
ACGTAGCTGCTGAGCCCTGTGCAGAATCGGGCTGGCTGGCTTATAGCCCTCTGAGATGTGACCTGGAAGACTGAGCCCAGTGCCAGGAACTGCTGGCCAGGTTGCAGCTCCTCAGCTGTGGAGTTCTCACCAGCACCACCCCTGGGATGGCCAAACTGACACGTTTCCCTAGATACCAGGAAGCTTACAAAACTCGGAGAATTATAAGAAGCCTGAGGGTGAGGGCCCTGAGGCACCCTGCGAAGATGGAGGTCACTGGAAGGCTGTTCATCTGGGCTATTTTAGCTGTCTCCTGTGGGGCACAGCTGAATTCTACAGAGGCTGAAG
Seq A exon
GTAAGAAAATTGAACCAGATTCTTCAACTCAAACAAAGAAGACTGGCTTTTACCAGGCTTCTCCCGAAACTTTGAAAGCTTTTGTATCTGCCACGGCCCTCAATACAGAGAACTCACCCTTGTGTTCTCTGGGCTTCATAGTCATCTCATTAAGGCCCATATGGCCATGGTCATTGAAATAAAAAAAAAGGCACACACAATTTCACTTTTTTTATTAGATATTTTCTTTATTTACATTTCAAATGTGCCGGTTGTGGTGTCACACACCGGTAGGATTGGCTGAAGGAGGCAGAGGGCAGGAGGATCACGTGTTCGGGGCCAGCCTGGGCTACACAATTTAACTTTTAGTGCATATCTTAGGAAAATGATTCCTACACGAATAGATATTGGCCTGATTCTTATAAAAAAAATGTAAGTTTCAGGTGCTGTTTTTTTTTTAAAGGGCAAACCAATAACAGAGAAATAATCTGTTAAGTTCTAAAATATTACATCTACAAGAAATGGTCTCTGTTAGGAGGGAAAATGCCTGAAGTTTTACAATATGACACCATTTATGTCTAGAAGTATGCACAGAACATCTTTTAAATCAAAAAGAGAGGAGGGAAGGAAAAGACAGATGAATTTGCAGAAGGTTTTAACAAAGATGCTGCCCCTGGGTGGGTGGGACTGTGCCATCTCTTCTGTTATCTTTGCTTTCTTTTTCCTGACAAATGTAGACCTCGTATTCTTAGGTAAAGATAGATAGATCGTTCATTCATTAGCCGTGGGTGAAAGAGAACATACCGAGGTTTCTTTCTAAGTAACGTAGGGGTTTTATCAGTCTTTTTTTGGAAAATGTGTCTATTCTTGTCCTTTCTGGACAATGAGAGAGGCAGACAGACAGACACACACGGAGGGTGGGAGGAAGAGAGGGAGAGGGAGAGGCAGAGGGAGTTAGGATCTGTCTACAAATCTCAGACTGGCCTCTTTGCATGGGAGCCTCCTCCTTCAGCCTTCTGAACGCTGCAGTTACAAATGTATGCCTCCCTATCTTCCTTTCCTCATTTCTTCTTTGGTTTCTGGTCTTTAACTTATTTTTTACATTTACTTATTGTGTGTGCTCAAGTACGCATGTACTCACATCTTAGAATACTCAAGTGAAGGTCAGAGGATAACTTCCAGAAGTTGGCTCTTTCCTACCTTGCAGGTTCTGTGAGCTGGATATGAGTTGTCAGCTTTGGCAACGAGGGCCTTGACCCACTGATCCACCTCACCGGCCCCATCATTTTTGACCAATAATTTTTTTGTTATATAAAACACTTTTTTGAGACAGAGTTTCAATGTGTAGTCCTGGGATGTCCTGGAACTCACTCTGCAGAGCAGGCTGGTCTTGTGCTCACAAAGGTCCGCCTGCTTCTGCCTCCCAGCCACTGGGATCAAAGGTGTGTGCCACCGCTGCCAGCTAACAATTTTTAAATTTAAACCTATTTTGATCATATTCTTCCCTTCCTCCAAGTCCTCCCAGATCCTTGTTTCCTCCCTATCCACCCCACTTTAAGTTCTTTCTCAAAACAACCCGCAAGCCCAATACAACAACAAAATCCTAAAAACCTAGAAAGCAAAATACATCAACACCCTAAGGGAGAGAAAACTATAATCAAATAAAAGCACACAACAAATTGTGGAGTTTGTTATATGTTGGGCAACTACTTCCCCTTCCTGTGGGAGGTTGAGTCCTAGTGCCTGCTGGGAGACAGGGACTGCTCTTTCCTTAGTGCCAACTATGGTATCTACCAG
Seq C2 exon
GCAAATCAAGATGCACAGCCAGTCTGGGAGGGGCCAATCTGGGAGAGACCCATAAAGCCCTGGTCCTACAGCTCAGTGCGAATGAGAACTGCACTTGGACCATAGAGAGACCTGAAAACAGGAGCATCAGAATCATCTTCTCCTACATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040205:ENSMUST00000046611:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion (1st CDS intron)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(30.1=54.9)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
ALTERNATIVE
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCCTCTGAGATGTGACCTG
R:
ACCAGGGCTTTATGGGTCTCT
Band lengths:
347-2123
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