MmuINT0117785 @ mm9
Intron Retention
Gene
ENSMUSG00000028779 | Pef1
Description
penta-EF hand domain containing 1 [Source:MGI Symbol;Acc:MGI:1915148]
Coordinates
chr4:129798412-129802462:+
Coord C1 exon
chr4:129798412-129798685
Coord A exon
chr4:129798686-129802306
Coord C2 exon
chr4:129802307-129802462
Length
3621 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
GTTCACATCCCTTTCTCCAGGTG
3' ss Score
8.87
Exon sequences
Seq C1 exon
AGTTGCCCAGGAGCTGCAGGACAGGTGCCTGGAGTACCCCCGGGGGGCTATTATCCTGGTCCTCCCCATGGTGGGGGCCAGTATGGCAGTGGACTGCCCCCAGGTGGTGGCTATGGAGCTCCTGCCCCTGGAGGACCCTATGGATACCCCAGTGCTGGAGGAGTCCCCTCGGGAACTCCAAGTGGACCATATGGCGGTATACCTCCAGGGGGTCCCTATGGTCAGCTACCTCCAGGGGGTCCCTACGGTACCCAGCCTGGACATTATGGACAGG
Seq A exon
GTAAGTAGAATCTCCAGTTCCAGAACCCAAGCCTAGAACCTCAGCCCTGGCCTATGCTGTCCACATCCCACCCTTCTCCTTCTTGTAGATGTGCAGGTATCCTGGTCTCTGACACATAGCCCCTCCCTTCCTGCGCTGTCTCTGCTGACAGAATGAGAGTTCATCAGTTAGCTTTGTTGGGCTCTCATCTCTAAAGTCCTCTTGGCTTTCAACAAGCATTTTTATTGCTTGCTCACTTTCCCTTGTGTGTCAGCAGCTGAGTTCCTGCCTCAAGTGTCTTCATTCTGGGTGCTGAAGGAGCATTCCATTCTGGGGACATGTTGTCCTTAGGGTAGAGGAAAAAAGTAAGAAGCTAGAAGGGCTGGGTGGTACCTCGTAAAGCTCTTCTCAGAAGGACTGATGTCACATCCGCTCGTGTACTTCTCCCTGAAGCGCATCCCACTGTGAAGGCTGACCCCAGGAGGAGACGGTTCACCTCTCATAGGGAGTCTTAGGCAGTGGGCGGGGCCGGACAGTGCCTCTGGGAAGGGAGCTCAGCAGATGCCTGGCCACAGCAAGGTAGTTTACAAGAGAAGAAACTCCATCACTGAGCAGGGGACTGACCTCATCTGTACGAAGGAAAGATGGTGTCATTACCGAAAGCTTGGCTTTAAAGGTCAGACACTTGCTGACCTGACCAGACTGTCTCTTTACACCTCAGTGCCCTCCTCTGTAAAATAGGGACAGTGCCACAACCTCACAGGCCGTATTAAATGTGAAGCTGCAGCTTAATGCTGGGCACAGCGCATGGGTCTAATAGACAGGCAGCATTCTATGAGAGGACTTGTTATATGGCTGAGCAGTGTTGGCATTTACTGTGATAGGAGCTGCGGCAAACCAGAGGGTGGAAGAGAAGGGAAGGAAGATGCAGGCTGGAGGGGAGGTGTGCACAAGACAAGGAGGACAGAGATTGAAGAGCAGAGGGTGGGGGAAGTGCATTCCTGTCCTTGCTTTCCGGGACTCACTTTAGTGAGCTCCTTCCCAGAGTGGCTGTTCTCAGGAGGCTGAGCACCAGCTAGCTGGCCTGGAACCGCCTGGGAGAAGGGGCTCCAGGGAACGTTGTGCTTGGGAAGCAAGCTGCAGCTGAGTGGATGTACGCAGGCAGGTAGCCCCGGGGGAGATGCCCAAACCTCTGGGGTTCTGAGCACTGCCAGCCAGTGGCATTTATCTTCTCAGAGCCAAGCTCTAGCTGTTAGCTTTCAGCTCAGCAGCTCTGCACTGGATTTCCATATCCTACAAAACATGGTGTCTGGGCTCGTAGAGTTCTAAAGGGAGAAGAGCCCTGACTCTGAGGCCTGTCCCCGCAGAGCCCAGGAGTGGCAGGGAGGAAAGGCGGGACATGGGTCACGTGGGTCACATGCTCAGCCTCCCTCTTTGCTGCTTCCTCTCTGTGCCTGCATTGCCCCTTCCACTGATGCTCCTGATGTGTGCTTCACTTGCCTTAGGGTCCTTGGAAGTTCCACCTCCAAGGTGAGGGCCACTACTGTAAAGGACAGAGCTGACCATCAGAGACGCTCCTCCGCCTGCTGGAAGATCCCAAAGGGCCTTTCCGGCTTACCCACTGCCGTCAGCCCTCACCTTCCATCCAGCAGATTTCGGAGTGCTCTACACACAGCCTGAGCCATTGCCCCCTTCCCCTCCTCCACAACTCCTCAGCCCTTCAAACACAGCTGAAATACCCTCCTCCTCCCCGCCCCCATTCCAGCCTGTGCTGTGGACTTTGTTTTGCTCTTGTCTCATGTAATTCATTCCTGCTGCCCTTGGATATGGTTCATGTTATAAATATGGAAGTTGGCATTCAAAGAGATTACTTACTTAAACTGAAATTACACAACTAGTAGTCAGGACTTGAATCTACAGCCACGCTCTTCTGTATGAAACTAGCTGCCAGTGGGGGTGGCTGTCCTTCCCCAGTGACCTGCTTGTTCCAGTTTGGTTTCTTTTGTGATGAACACCATGACCAAAGGCAGCTTAGAGGAAGGAGGGGTTTATTTGGTCCATCATTGACAGGAACCAAGGCAGGAAGCCTAAAGCAGAAACCAAGGAGGAGAGCGGCTACTGCCAGACCTTTTGCCCGCCCCATGCTCAGCTAGCCCTTTCTGTTCAGCACAGGCCCACCAACCCAGGGATGGCGCTGCCCACAGCGGGCTTCTATGTCAACTAGCAGTAAGACAGTGTCCCACATACATGCCCACAGGCAATCCCTTGCCCAAAAACCAGGATCATAAAATGGGCCAGGGGGGCTGGAGAAATGGCTCAGTGGTTAAGAGTGCTGACTGCTCCCCCGAAGGTGGTGAGTTCAAATCCCAGCTACCACATGATGGCTCACAACCATCCGTAATGAGATCTGATGCCCTTTTCTGGGGTGTCTGGGGTGTCTGAAGAATGAATGAATGAATGAATAAATAAATAAAAATGGGCCCAGGACTTTAAGAAACTTGCCACCCATGGGATTTTAGTAAGTAAGCCCTAGTTTCAGAAAGGCAGTCTGACTTCTCTCCTGCCCCACACTTTCAAAGAAGTTTATCCAGGAAAGAGTTTCTGGGCCAGGCTTCACGAGACTCTCCACGGCAAAGCTGATTCTCAGACCCTGTATGGCGGGCGGGCACATATTCCTAGGCCCTCAGATACTGAGTTGCAGCGTTTGGAGGCACCAGCCTCGCAGGCCACTAAATGTACAGTCTGCTCTCGCCACTTGTGGTCACACTAAGTGTCCTTTGTTGTCCTCCACTGATGTATTTCTTAGCTATGGTCTGGGCAGTCCTCAGTTGAGCCCCTCCTCTACTCAGGTGCCCCAAGTGGACAGCAAGCACTAACCAGTGCACTGTTGTTTTAAGTGGGCAAGCCTGCTGGGCAACTTTTCCTTCTGGCCTCTCCTGGGTCTGCCCTCTACACTGTGCATGTCCGTTTCCAATATGAAATGTAAAGAAACCCCTTGTGTGGCCTGTCCACCCTGCTTCACTAAGACAGCCTAACTCTGCTTTTCTTTGTCCTTTAGGCCATTTACAGAGATTTCTTGCTTTATTGGGGGTGGAGTATAAATCGAGTAGAGAAGCTATTGGGATAATACGTGTTGCAGGCCTCCCTCAGAAGGGCATGGAGGACAGACCGTGAGGCCTTGTGGGTAGCACCTGAGATTGCTTTCTGTTGCTGTGGTAAAACTGATTAGGGGAGGAAGAGGTTTACTTGAGCTTATAGGCTGCAGTCCATCATTGAGAGAAGTCAGGGCGAGAACTAGGAAGCGGGAACCATGGAGAACAGTTTGCCGGCTCCTTTGCAGGCATACACTTTCTGAATGGCCTTGAACAGCCCAGGACACCTACCCAGGGAATGGTGCCACCCACAGAGTGGGCCTCCTACATCAGTTAACAATCATGACAGACGGTCTCCCGCAGGCCAGTCTGCCTGGTGCATCAACCCTTCAGCTGGGCTCCTTTCTCAGTGACTCCAGGCTGTGTCAGGTTGGAGATTAACACTAACTAGAACATAAGGGGGAACATGTGACCAGAGGAGGTTCTCAGAGTGGCTCAGCAGCATTGCTTCTCTGGGTCTGACTGCCATGGTTCACATCCCTTTCTCCAG
Seq C2 exon
GTGGTGTCCCCCCGAATGTGGATCCTGAGGCCTACTCCTGGTTCCAGTCAGTGGATGCCGATCACAGTGGCTATATCTCCCTCAAGGAGCTGAAGCAGGCCCTAGTCAACTCCAACTGGTCCTCATTCAATGACGAGACATGCCTCATGATGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028779-Pef1:NM_026441:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.189
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134991=EF-hand_7=PU(71.4=94.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: