MmuINT0007163 @ mm10
Intron Retention
Gene
ENSMUSG00000078435 | AU041133
Description
expressed sequence AU041133 [Source:MGI Symbol;Acc:MGI:2143755]
Coordinates
chr10:82150217-82153065:+
Coord C1 exon
chr10:82150217-82150277
Coord A exon
chr10:82150278-82150705
Coord C2 exon
chr10:82150706-82153065
Length
428 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGTTGTCTCTCCTTTGATAGACA
3' ss Score
7.88
Exon sequences
Seq C1 exon
GATACAAATTGGAAGACCTGAATAGTGAGGAACACTCTCAGCGCTCTAGAAGATATGGAAG
Seq A exon
GTAAATTTCATTTGAAAGCTGAAACAAATGCATTACTGATTTAATGGGAAACTTTAATGGGAACTGAAGTTTTAAAGAGAAGCACAGCTTTATGTTTTTAATTACTATTAAATTCTCACAAGACCATGTCCTTGAGTTTCAGGTAGTATTTAGTACCATGCCATTCAATTATCATAAAAGGCATACACATTGATTTGGTGTTTGGCTTATGTCCCAGACCTTTTATAAGCAAATAGTTCATAGTAAAGCTAATGTTATTCATATGCTTACAGTGATTTTCTAAAGTTTAGTGAGAGGAACAGTTCATAGGAGGCAAGAAAGTTATTGCTGTGGAAACATCTTAATCTCTATAGCACATGTCAAGGGGAACAAAATGTTAGCCTGTGTGAGTGCACTGTGACTACCTTTTGTTGTCTCTCCTTTGATAG
Seq C2 exon
ACATAAGATCTGTCACTCTGAATACAAGCCTTGTGAACTTAAGGGATATGGAAAGAAGCAATGTACCTTTGCAGATAAAAGGTTTCTTCAAATATATGGAAGAATCCATACTGAAGGGAAACCCTATGAATGTAAGCAATGCAGTCAAATCTTCACAAATTTCTGTCATCTTCGAAAACATGAAAAAAAACATACTAAAGAAAAACTATATGAATGTAATCACTGTGGTAAATCCTTTCCAAGTCGCAATTCTCTTCAAATACACAACAGAACTCATACAGGAGAGAAACCCTATGATTGCAACGAGTGTGGTAAAGCATTTACATGTAGCAGTAATCTACTACTACACAAAAGAACTCATACAGGAGAGAAACCCTATGATTGCAGTGACTGTGGTAAAGCGTTTGCAAGTAGCAGTAATCTTCAGATTCATAAAAGAAAGCACACTGGAGAGAAACCCTATGGATGTAACCAATGTGGTAAAGCCTTTGCATATAGTAATGCTCTTCAAAAACATGAAAGAAGTCATACTAGAGAGAAAATCTATGAGTGTAATCAATGTGGTAAAGCCTTTGCACGTCATAGAAGTCTTCAAAATCATGAAGAACATCATACTCTTGAAAAACCATATGAATGTAGTCAATGTGGTAAGGCCTTTGCATATAGCAGTAATCTTTATATACACGAAAGAAGTCATACTGGAGAAAAGCCATTCAAATGTACTCAATGTGGTAAAGCCTTTCCAAGTCACAGTTCTCTTCAAATACATGAAAGAACGCATACAGGAGAGAAACCCTATGACTGTAATGAATGTGGTAAAGCCTTTGCATGTCGCAGTAATCTTCTACTACACAAGAGAACTCATACAGGAGAGAAACCCTATCATTGCATAGAATGTGGTAAAGCGTTTGCATGTAGCAGTAGTCTTCAAAAACATGAAAAAACTCACACTGGAGAGAAACCTTATGAATGTAATCAATGTGGCAAAGCCTTTGCACGTCGAAGTGATCTGTATATACACGAAAGAATCCATACTGGAGAGAAACCATATGAGTGTAATCAATGTGGAAAAGCGTTTGTACATTGCATTAGTCTTCAGAGGCATGAACGAACTCACACTGGAGAGAAACCTTATGAATGTAATCAATGCGGTAAAGCCTTTACACGTCGCTTTAGTCTTCAGGTACATGAAAGAAGTCACAGTGGAGAGAAACCTTATGAGTGTAATCAATGTGGTAAAGCCTTTGCAAGTCGTAGTAGTCTTCGATATCATAGAAAACATCATACTGCTAAGAAACCAAATTAATCAGTGTGGTGAAGCCTTTCCATATTGTAGTCATCTTTAAATCCACAAAAGAAATCATACTGGAAAGAAACTATGTGTGTAGTCAATATGGACAAGCCTTTATATGTCACAGTAACCTTCATAATCACAAAAAAAATGTCATGGAGAGAAGCCCTACAAATGTAATTGATGCAGTAAGCTTTAGCATGTAAGTTTAATATTGAGACATATCAGAGAACTCATACTGGAGAGAAACGCTGTGAATGAAATCAGGTGATAATGCTTCTGCATGTTATGTCTTCAAAGGCATGAGGGAAGTCCTACTGGTGTAGGAATGAAGCCAATGAAGCCATGGCCCATGCCATGAAACCAGTAAATGCAGTAAAGCCTTATACACTAAGCACATTTGGTGGGAACACTGAGTGATCCCACTGGGAATTATGTAAGATTAGTAGAAGCATTTCATCATTAAAATATTGTCTTTTTTACAAATTGACATCCAAGAATAGAGGAACACAGAATAATTTGAATAGTAAACCTACTTGCAAATGAAAATGATATTAATACTGCCATTATTTTTATGGGTTACTTTATTCCGAGGAATTAATACTTGTTCTTAACACTTTCTCAGAAGCACAAATGAATGGCAGAGAAGTGTCTCAGTGACTGAAGGTGGTTGCTGCTGAGCCTAATGACCTGACTTTATATGTGATGTGGAACTCACATTACTCATGCAAGTTTTTCTCTGATTTTTACAGTTGGGCTGTGTCATATGCACACACATAATGGTACATATATACAAAAGTGTTTTTGACAGGTAAATAAGGGCCAATGATTTCACTCGATAATTGAAGGCACTTGCTGGAAAACTGGACTACCTGTGTTTGATCTCTACAACTCTGCTAGAGGAAATAGGGCATAGACACCTGTAAGTTGTCTTCTGACTGCACATACACAACATAGCACAGGTGTATACACACAGACAAAAATTATTATAGATGAAATTAAAGAAAATAACTGAAATATTGAGAACATAAATGATTTACCAGTCATAATAAATACATTCTAGTATTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078435:ENSMUST00000201286:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF079757=C1_4=WD(100=12.2),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF079757=C1_4=WD(100=11.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0),PF134651=zf-H2C2_2=WD(100=6.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAACACTCTCAGCGCTCTA
R:
TGCTTTACCACACTCGTTGCA
Band lengths:
353-781
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