Special

MmuINT0023309 @ mm10

Intron Retention

Gene
Description
zinc finger protein 948 [Source:MGI Symbol;Acc:MGI:3040683]
Coordinates
chr17:21567046-21569127:+
Coord C1 exon
chr17:21567046-21567245
Coord A exon
chr17:21567246-21569048
Coord C2 exon
chr17:21569049-21569127
Length
1803 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
AATCACTTTCTCATGTACAGGGT
3' ss Score
7.18
Exon sequences
Seq C1 exon
AGGACCTGTCAGGTCCAGAGCTCGCGGCCCTGCCCCGTGGGGAATCGCGTGGTTCAGACCTGGGGTCAGAGGACACAGAGGACTTCGTGGGAAGCTAAAACTCCAGGCAGCCGCGGGTGCCTTGCGGGGCATCCTGGAGGAATCAGCAATCAGTCGCAAAGCGGCGAGAACCGGAGCCAGGCGGCCCTGGAACCGCCCAG
Seq A exon
GTCAGAGGAGCTGTGGGGTTGGAAAAGGGCGGGAAGGGAACAGGGTGTGATCGGTTTGTCTTCTGCTTCTAAGGAACCTGGCTCGGGAATTCTGCTGTAGATGTCTTTCTTCCCTTGTCGAGAACTTTTAGCTCACATAAATCGGACTAATCCTGTTTTTTTTTTTTTTTTTTTTTAAATTGACTTCTGAATGCCAAATGTTCCTATTAGAATACTGTAGTAGAATATTTGAATTTATGTATTGATTTTTGAAAACCAATTCTGTTTGTTCAGGTTAAAAGGAAAAAGCTCTTGAAATTTACATTCATTCACTCTAACTGGCCTGTTTTACCAGGAGACTTACAGTGACTTGGCATCCCCGGATATCTTTTAGATACTATATATAAAGGAGTGGTTGCAAATAATCTGAAAGAATATTTTATTTTTGCAAATTACATAGGTATGGTTGTGAACATTAACATTTATAAGTAAACTTTTATTTCTCATTATTAATTTATTTACTTTACACTTCTATCGCAAACACCACCCCTCCCCCCACTTCCTCTCCTCCCAGTCCATTCCTCCTGCTTCTCCTCCACCAATTTCCTCCTCCATTTCTCCTCAGAGAAGGGGAGGAGTCCAGTGGCTCAGCCAGTCTAGTTGCAGTAGGACTAGGCTTATCTACCATTGAGGCTAGACAAGACTGCCCAGTTGGAAAAGGAATCCAAAGGCAGACAACAGAGTCAGAGACAGGCTCTGCTCCAGTTGTTACAGGGCCCACATGACAACTAAGCTGCACATCTGTTACAGTTCACAGTTAGAAAGGACATTATAAGCACAAATCTTTAATCCCTATCTTGGGAAACAGGCAGGTAGGTCTAGAAGATCCTTGTCATCCTGGTATACAGACATGGTTTAAGGACAGTCAGGGCTATGGAGAAATCCCGTCTATTGGAAACGGGAGAAGAAAAATGAAAACACGAATGAAACGTATTGTTGTAAACTATAAAACTATAAAGCGTCTTTTGAAAAATTAACTCTTCTATATTAGAAAAATGTCAATAGTAGTCTTTTGTCTCCTTTCTAGTAAAGGACTCTATGGACATACAACCAAACTGTAATTTTTTAGTTCTTTTGTTTGCTGTGTTTGATCCCTGAGCCCATTCTGTTGCTACATCTGGACTAAACTCACCTTGTAGACCAGGCTGGAGTGGAAGTCACTGAGTTCCACCCAACTCTGTCTCCTGAGTGCTAGGATTAAAGGTGTGAACCAAGACAAATATTTTTACTGCTGTTTTGTACTTTGTGGTCAGTTCACAGCCACTGGTGTGACTGTGGACTTCTTCAAGAAGGAGGGGCAATGTCAGGACCATGCTGGGGAGGCTTTGTACAGAGACTGGATGTTGCAGAATTACAGCCGTCTGGTTTGTATGGGTGAGAATAGTTTGCTTCCAGCCTCCCTTGCTCCTCCTCAGGGTTTTTGGTGTTTTATTTTGCAAGCTTTTGGGGGTATAAGGATTTTTAATCCCTTTGGGGGTATAAGGCGTCCATCATTTTTAGTCCAGGATAAATAACGACCTCCCTAGTATATAATATTCTCATCCATATCATTCCATTTCATTTTTGCCCACCAGCTTTCACTGATCTATAAATAGAAGTGAGGTTCAACTTATGCTAACCAAAAATGCTTTCTAAATATTTTCAATATTCTGAAACTGCATGAGAATTGGGGGGGATCATTGTGCAATCCTCTCTTAACCTACTGATCACAGTACTATGTTACAAATCCAGGTGCTTTTTGAAGAATCACTTTCTCATGTACAG
Seq C2 exon
GGTTCGCTGATCACCCAGACCTGCTTATCTGTGGAAACCTAGAAGGTGGAGAGGGAGAACACAGTAGCTAAGGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067931:ENSMUST00000088787:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact

5' UTR

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

C1:
NA
A:
NA
C2:
NA


Main Inclusion Isoform:
NA


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
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:
CCTGTCAGGTCCAGAGCTCG
R:
TCCTTAGCTACTGTGTTCTCCCT
Band lengths:
270-2073
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