MmuINT0023109 @ mm10
Intron Retention
Gene
ENSMUSG00000050855 | Zfp940
Description
zinc finger protein 940 [Source:MGI Symbol;Acc:MGI:2446235]
Coordinates
chr7:29843936-29846564:-
Coord C1 exon
chr7:29846469-29846564
Coord A exon
chr7:29846249-29846468
Coord C2 exon
chr7:29843936-29846248
Length
220 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACTATGAATTTATCTTTCAGACA
3' ss Score
7.99
Exon sequences
Seq C1 exon
GACTTTTTGTTTATCGGCCACATCTGTTCTCCTTGTTGGAAAAAGGACAAGACCCCTGGATGATTTTGAGGGATGAGACAAGGGGACCTTATCCAG
Seq A exon
GTGAGTGAGGGCTGGGGTGAAATGGGACAGTCATCAGATAAGATGATGGCTGTCTTAGAGTGCCGGTTGCTATGGTGAGACATCATGACCAAAGAGCAAGCTGGGGAGGAAAGGGTTTATTGGCCATTTTTAAAGCCATTCATCTTATACTCTAGTATTTTCTCTATTTATATTGGATGCTTTATCTGTTTTGAATAAACACTATGAATTTATCTTTCAG
Seq C2 exon
ACATAGATTTCAGTTCTCAGAACAAGAAGTTCCTGGGAAAACCTAGCACATATGAAGAATTATCTCAAAGGGAAATGAAGGAATATTTTAGAAAACGCAGTCTTGAAGATTTCTGTTTTGGAGATGGCTGGGATGGCAAAAATCAGTTTCAAACGCATCAAAATCAGGAATATTTTAAGCAACTGGCAGTCGCCTATGAAAAAGTGCTCACTGTGAACCAGGGTATAGTTTTCAACAACCACCAGAGACTGAATGCAGGAGAGAAAGCAACTGAAATTCAGTGTGAAAAAGCCCTTACTGTGGAATCTGACCGTATTCTTCCTCAGCTAACTCCCCCTGGTAACAAAGTCCACAAAGACAAGGAGTGTGGGGACACCTCTGCTCCTGAATCGGAGCGCACACACTGTCAGAGAGCTCACTGTCCCCAGACCCCTCAGCAGGGGAAGGAATCTGGAGGGCCGTTTGGTTTGCCTTCAGGAATACTGGGCCTTCCGCAAGGTCACACTGGTGAGAAGTCCTATGACTGTAAGGAGTGCGGAAAGTCCTTTACTTTGAAGTCAAACTTGACGCGACATCGCAGAATTCACACCGGTGAGAGGCCGTACACGTGTCATGGATGTGGAAAGGCGTTTACACAGAAATCCCATCTCATGTCACATCAGAAAATTCACACTGGAAAAAAAGCTTATGTCTGTGGGGTCTGTGGAAAAGCTTTTCACTGTGACTCAAGCCTGACCAGTCATCAGAATATTCATTACCATGCAGCTGATGCTGGCAAGAAAGCATATGAATGTAAAAAGTGTGGCAAAGATTTCGATTGTCACTCAGGTCTCATTGATCACCAGAAAGTCCACACTGGAGAGAAACCTTTTAAATGTAAGCATTGTGGAAGGCTTTTTAGGTTTCATTCACATCTTAGGGCGCACACACGGATTCACTCTGGCGTGAAGTCCTATGACTGTAAGGAATGTGGAAAATCCTTTAATTTGAGGTCAAACTTGATGCGACATCACAGAGTTCACACAGGTGAGAGGCCGTACACGTGTCATGGATGTGGAAAGGCGTTTTCACAGAAATCCCATCTCACGTCACATCAGAAAATTCACACCGGAGAAAAAGCTTATGTCTGTGGAGTCTGTGGAAAAGCTTTTAGTCGCGGCTCAAGCCTGACCAGTCATCAGAATATTCATTACTATGTGGTTAATGCTGGCAAGAAAGTGTATGAGTGTAAAGAATGTGGCAAGGCTTTTGGTTGTCATTCAAATCTTAGTCGCCATCAGAAAATCCATGCTGGAGAGAAACCGTTTAAATGTAGGGACTGTGAAAAGGCCTTTGGTCAAAGAGCACATCTTACCAAACATCAGAGAATTCACACTGGTGAAGAAGGCCCTGATGAATGTCAGAGCGTGGAAAAGTTTTTCCTTGAAGACCACAACTATGTCGACATCAGAAAATCCATACTGGTGTGAAATGATGGAATGTATGAGGAATGTAGAATGTGGCTCTTATTCGTGGTTTTTATTGTACCCACACTGGAATATTCACATTAGTGGCAAGCCCTGAGTCCCAGGGATGTGGGAAAGTCTACATCTGGAGTGCAGGCTTAATTGTCACCAGAGCATTCATACTGAGGAAAGAAAATAGTCCAAGGAATATGGAAAGACTATTCATGGTTTAAAGCTTAAATCATCATCAGAAAATATGTACTGTGGAGGAGGCTTAGCAACCAGGCATCTCCACCATCAACCTCAGGGACCCAGGGATCACAGGATACATCATCACCAGCTGCCAGGATGCAACGCACTCTCACCACATCCTTTGCAAGCACGTGTACAGCATGCTCTTATAAAAAGCCAGTGCCTCCTTATAGAGAGAATCCATTGTGTACTGTGTGGGGTCATCACCCATCAATAAATAGCTGAAGGCCTATTAGCTGAAATAGAAGGAAATTAGCAAGAGATAGAAAGTGGAACATCTGGTAGCAAAAGATTTGAACTTTGGGAGTTAGACAGAGGCAGGAGATTCCCTGAACTCTGGAGGAGACAGAAGCGTGAAACCGAGGATAGGCAACTAACAACAGTTTAACAGTTAAGTAAGTGACAAGCTAGTCAAGGAGCAACCCCAAGCTTATCAAGCAGCCATTTATTCATAAGAAATTAAGTCTCGGAGTCATTGTTCTAGAAACAAAGAGGCCAGGTAGAAAAGCTCGAGGCGAGGCTGCACCTCCTCTCCCTGTTCTTTTCCCCTCCACCCTTGCCCAGAGGCAGCCTCTGTATGCTCCCTCCTCAATAAACCTCCCAGTGAGACCTGTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050855:ENSMUST00000085792:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=3.9),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=6.3),PF134651=zf-H2C2_2=WD(100=5.1),PF134651=zf-H2C2_2=WD(100=5.1),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=5.3),PF134651=zf-H2C2_2=WD(100=6.3),PF134651=zf-H2C2_2=WD(100=5.3)
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:
CGGCCACATCTGTTCTCCTTG
R:
TACCCTGGTTCACAGTGAGCA
Band lengths:
307-527
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