MmuINT0164874 @ mm9
Intron Retention
Gene
ENSMUSG00000064043 | Trerf1
Description
transcriptional regulating factor 1 [Source:MGI Symbol;Acc:MGI:2442086]
Coordinates
chr17:47465967-47474588:+
Coord C1 exon
chr17:47465967-47466042
Coord A exon
chr17:47466043-47474499
Coord C2 exon
chr17:47474500-47474588
Length
8457 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
GAAGCTCTGTTTTGTTCCAGGTT
3' ss Score
8.2
Exon sequences
Seq C1 exon
GCTACCCTGGAAATGCTGCTGCTGCGGAAGCCAGTCAGGTTAAAATGTCATCCTTTAGCAAATTACCACTACGCCG
Seq A exon
GTAGGTTGCCAGGATACCCAGGCGCTGTCGCTTCCTAAGAGCGGGCACCTCACGTTTGGCTCTGTGTCATTTGTTTGAACAAGTAGATAACACTGGGTCCATTAGCCCAACACTGCTAGGCACGTGTCAGTGTAAACACCTGCCCCTGTGAATGTCCCAAGATCTGGGAGATGGTGCACGATGGCTGCCCACCAGGCAGTGGGACCTGTGCATCAGAGGGAAGAGCCACCAAGGCTACAACACAGAGCAGGCCACTCTTAGCAGCCCGTGGCTTTGGAGGCAGTAAAGGTGGGCTCGGGTCTTCCTCAAGGCCCTAGGCTTTCTATAGACTTGAATTAGAAAAAGAAAGAAGAGAGGGAAAAGAAAAGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAGAAAAGGCTATTTCAATGCCAGGAGAAAGACTTCATGTGTGCGTGTGTTCAGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTAGTAGTCATAGTAGTAGAAAACAGCTTTAGATTTAAATGGAGTGTGAAGGAAATAGGTTGAGGAGCCTGAGGACAGCAAATGAGGCCATGAATGGAGGTTCCACTAACTGGAAACCCATCCACTCTTTCTCCCCAGTCCTGCCTTGTTTGTCTACTTCAGAATGACTGGGTCTTTCATTGCCCCTTGATTTTTTTTTAAAGACTTATTTATTTATTATATGTGAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAAGGCATCAGATCTTGTTATGGACGGTTGTGAGCCACCATGTGGTTGCTGGGATCCGAACTCAGGACCTTTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCTTTCTCTCCAGCCTGATTTTTTTTTTAAGATTTTATTTTTAATTTCGTCTACCTGTCTGTCTGCCTGCCTGCCTGCCTGTGCGTGCTCAAGAGCACATTATTACATTGCCCACAGAAGCCAGAAGAGAGTGCGAGATGCATGAAAGCTGAACTTTGAAGGAAGTTTGGGTCACCTGTGAGGGGTGCTCAAAGCCAGTCTCCTGACCTTTGCAAGCTCAGTATCCACTGTAGACCACTGGGCTGTCTCTCCAGCCACTGCCCCTTGATTTGTATCATTTGAGGGTTTCTTTGGTGCCTTGGGCAGACCTCCCCTTGGTAGATACTGAATGTATGGTCTTGGGGACCCCTTAACACTCCTTCCAGTCCCTCACCAGACAACCAAACGCAGCCCAAATGTGAAGGTTTCTTTTGTCTCTCCCTCCATCCTGTGAGTTGGCTTGCGCCACCTGTTGTCACCAAGTAGAAAACCCTCAAAGTTGTGTATGAGGAATACCCAAGGACACCTACCTGGGGGTCAGTTTCAGCTGACAGCAGTCACATGGAAGAGACAAGCCGGAGATGGACACTTAAGTTAAAGGCATCATGTAACCAGGGCCCAAGGAGCCAACTTCATCATCTCCCCCACTTGTGTGGGTCCAACGATGTGGGAGCTCACCGATCTGACGTGCAAACAGTTTCATTGCTTCTTAATCCCCAGCATCATATGCTGTTAGCATCATATGCTGTTCCATTAAACCCTGGCAGGCCCTCCCAACTTCCTGGATCCTCAGCATCCAGGAGAGATCCCAAACTCCTCTGCATAGTGGGCGGAGCTTCGTGTGGGCTGAAAGAAGCTTCCAGCCACTGGCTTAACCGCAGGTCACACCGCCTCAACAGAACCTCGGGGTTGGTTGTGGCCAGCAGTGAGCCTCTTCATCCAGGACACGATCCTCTCCAGTTGTTCCCAGTGTGGTAAACAAGAACTATGCACTTTTTATGTGCATCATGACACAAAAGACCAGGAAGCCATGGGATAGAGCACCTCCAGCCCCAAGCAAAACAAAACATGAAAATGTTACCAAGAATGTTGAAAGTCTGCTGAGGCCCATTAAGCTTTTCGGATGGAGTATTGCTAGATTATCCATTCCCCCAACTTCTTCCCTCTCAAATACCTTAGGAAAAACTCTTGCTTTCTGAAATCATTTCAGCCCTTGGAGACCCGAAGAGGGGGGTTACCAGTCAGTTGCCTTCTTCTCCAAGTGATTACAAGCCAAGCCTCCAAGAATATTCTAGTGTTGTGAGCAGATGAAGACACTGGTCCCTGAAGTCAGATACAATTCCAGATCTTTGACAGCTGCCTATCAAGACATGGGAAGAGACAGGCGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGATAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACAAAAACAACAACAACAACAAAAAAAGGGAGATAACTGAGTTCGTTACATCTTTTGTCCCAGCCACCATGCCATACTCTGAAACCCCCTGTATATGATTCCTGGGGGGGGTCACTGAATCCTGTCCCATCATAGCCCTGTCCTGCCTCGGCCTTTGTGCCCAGAGCCTTTCTATTACTCCCAGTTGGACGGTCAGCTCAATTTCTCCCTCGTTGGAACACCTACCCTCAAGTTCCCTTTTGGCTTCCAGCCTGAGAACTAGACCCATCTGACTCCTGGAATTTCCCTTTAGGCTCCTAGTCTGGTTTGGTCTTCATTGCTGTGATAAAACACAGACTAAAACCAACCAAGGGAAGGAAAGAGTTTATTTGACTTAGAGCTTATAGTCCACCATTGAGGGAAGCCAAGGTAGGAATCAGGAAACAGAGTCTGAGGCAGCCCATAGAGGACCACAGCTGATTGGCTTGCTTACTGGCTCCTTCAGTCGCCTTCCTTACACAGTCCAGGCTCACCAGCCCAGGAATGGCACCATCCCCAAACGCCCAGGTCTTCCACCGTCAATTAGCAATTAAGAAAATGTCTCACAGACATGGCCACAGGCCAATCTGATGGAGCCAGTTTTTCCGTTGAGCTTCCCTCTTCCACTGGTATGTCAAAATGTGTGCCAAGTTGAGCAAAAACTAACTGTGACACCTAAGGAAGGAAGTCAGATCCGAGCTGTGCTGTTCCCTGGAGGGAAGACAGCTAGACAGAGGTCCTAGGCAGATAGATACAAGCCTGTGGAAACACTCTACTCCCTCGCTCAGGACCAGGAGGAGAGAAATGCCATGAGGCAAAGGACCAGTGAGCAAGGTGGGCGTCTGGCCCAGCCCTCAAGGCAGCCTGCCAAAGTTCAAGAGCCTGTGCAGCATCCTCAGAGGCAGCATCCTCAGAGAACAGCTGTGCAGTGCCTCCCAGTGCTCAGTCTACACGGGGACACACTGTCCCTCGCCAGTGGTTTCGCTTAAGCACTCACATCGGGGGTGGGGTGTACTGTACATGGAGGAGTCGTGGAGCTTGTAGTCAGACAGCTGGAGCTTCGGTGATATCTCCACTGAACAGGTCTTTTATGCAGATGTGCGCAGGGGATTGTGGGTGGTTGAGTTAGATCTAGCTTCTTCGCAAGGTACAGCGAAGAATCCTGTCACGTCCCACCACAACCACAAGTACCCACTGGGGCTTCAAAGTCTGCCTTGACTTTTGAAAGACAAATAAGACCTGCGAGAGACACCCTTTCTTTTTTCTTTTTTTTTTTAATATTTATTTATTATTGTAATTAAGTACACTGTAGCTGTCTTCAGACGTACCAGAAGAGGGCATCAGATCTCATTATGGGTGGTTGTGAGCCACCATGTGATTACTGGTGGTTGTGAGCCACCGTGTGGTTGCTGGGATGTGAACTCAGGACCTTTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCACCAGCCCCGAGACACCCTTTCCAAAGTCTGGGCTCGTCTTGGAAGCTGCCCAAAGTTAATAAGGAGACAGAATTCTGTGTTTGGCTAGAATTACTTTGCAAAGAACACAGCTGTGGAAGCTTTTATTTTGTTTTATTTTTACTACATAGTAGATTTCTACTATACCTAAGTCAGTACATTCTCCTGCCTCGCCTGACATAGCATTTGCAAAATATGTTTGGTGACAAACTCAAAATATGGGCTCAGATTGAAGCCGTCCCTCCTTACTGCACCTAGAAGAAACTTGGGCAGCAGTCTACATTCCAAGAAAAAAAAAAAATCTGACCTTTTCTTGCTATAGATAATTCTGTGTGACATTGAAAATCTGCCATAAAGGCTCCCGTTTTTTTTTACAGCGAGCATGTCTTTCTGTGGTAACCACAATACTGACATCAATAAAAGGTGGTTTGGTTTTTTTTAATCCTGAAAGGAAGCCAGAGAGACCCTCTAAAAAAGATACTGTGTCCAAGTTTTCTCTGCCCCAGGAATGTCTGTTTTTAATTGCCTGGATTTGCTGTAGATTGGCCCCAAATTAGCCACCATCCAGAGGGCCGTTTCCCAGCAACCAAAGCTCCATGCATTTTGCCTCTGGATACTATACTAGTGCCCATTTCATCCAGTTAATTAGGCTCTTTGTCATTAGCCTTAATCGGCTTGTTAGGGCCCCTGCTGATAATAGCCCAATAGCCAGGAATCCCCAGGTGGAACAAGTAAGTCTGGGGGAATGTCAGCCCACTAACCTCATTTGCCAGCCTGGAGGGTGGCAGAGATCTTACAGAGAGAGGCAGAGCTTTGAGAAACCAAGCAAGGAGTTCCAACAGGGCCAGGCAGCCTCATAAGAGGCCACACATCAGAAGAACAATGTGTGTCCCATCGCCTGCGCTGATACAGGATCTGCCTCAAGTGACTTGTAGAGACACAGAGCATCTATTGAGCACCTATTTATGACCAAACAGTGTTGGTCACAGTGAACTGGCCACCTGTGCCCAAGGGTAAGGAAACTAAGAATTGGACTTCCGTGCTGTCCCGGAAGGAAGAACTGTCAGGGCACATGCACAGCAGAAGATCTCCTGGCTAAAATCAACCTTGGTCACAGCCTAGTGAAGCCATCTGGGGAGAGTGCTCAGATGTCATTTATCTATACCAGGAACTCAGTCTAAGACCCAAGGATGGAGCTTCAATCCCAGTGAGCAGTCCCTGGTCTCTGGAGGCCATGTGTTGTGTGCCATGCCCTATTGGATGCATGCACACGTGAGTACAAGCACTATCCTTTTCATACTTACTAGGACTGTACAAGTGCCATCCTCTTTCTGTCACTAGCCTCAAAGTAGGAGTGACACAGAGAAGAAAGGGAGCCACCATCCCACTGTTTTCCTGGACAACTGAAGACCTGAGACAGAAAACCTCATTACAGAGCAACAACCTCAAGGCACACCCCCAAGAGGTCTTTTTTTTCCCCCCTCCTCCTTCAAGTATGGGGACTCCTGCCTAGCAGACGGCCCAGCAAGCCTTGTGGACACTTGAAGTAATGGATGTCTCAAAAGTAAGCAGAGCTGGGAACTCAGCCCTGCTCTTTGCACCAGCACTGATAGTGAGCCCAGTGAGGGGCAGTAGTTAAGTATGGCCTCCATAGAGATGCTGATGGCTTGAGAAGGCTGAGTAACCCTGCCAACGTCTCCAGGCAGAGTGGCAATAACTCTGATAAATGTACAATCTAAAGTCAAAGAGACTGTTCATTGATCGGCTTGGGGGTGAGCATTATCAGCGTCTCCTGATGCTCCATCTGAGGGAATATATTATATCCAAGGGCCACCCATCCTTGAATTGCAGGGGGCAGCACAATGTCCCCCTTCCCATACGAGCTGCTGTGACAGAGCTTCCGGCGCTGGCTTTCCGACCCCGCTACCTCGTCACTATTTTGATGGACACCTGAAAGCAGCTGGGACTGTTCTTTAATCACCCAGCTTAAATTGCTGGCTGCTTGATCTCGGCCTTCGTTCTCTTTGGCCCTCTCCAGCAGCGGAGAGGAGCTGGCAACTCTCTTCCCCCAAGGCCCAGAATGTTGGTCAAATCTGAGGAATATTATGAGATGGCTACGAAGGCACAGATGTTACCTATCCTCCCACCCTCCGTGCACACACAGTTGCTGTGGTTTGCACAGACCATGAATTGAGGGGTTCCAGATCTCAAGCTACTTCCTCTGCTGAGATTGTGCCTATAAATTAGAGGATGCTTCTGTGCAACATTGTCTTCAAAACTGTAAGGGTGTAACCTTGCAAAGCCGTGGAAATAAGTGATCTTAAAGTCAGCCAGACTATGGTCTATACAGAGTCTACAGCCTGAGCTTTTGGCTGGAAGACCTACCAAGGATTTATGGGCAAAGGGCGTTTATTTCAGACACCTGCATTTACATCACTGAGCCACGTACTCCCTCGGCAATCCAGGATGCCTGCCCACCCAGAGAGGCTTCTCTTGATTCACAGATTTTTATTTTTCATATGCTTGAATGGAAAATGCTGTTCAGATTGCCTGTGCTTATGTCCTGTCAATTGGCCAGAGTACAATGGAAAACTTGGACCTTCCCCTAGCTGGGAGTAAAGATGCTGTGGGCATCGGGAATGGTGGCGCACACCTATGGACCCAGGACCTTGGAGGCAGGAGCAAATAGGTGTCTGTGAGTAAGAGGCCAGCCAGGGCTACACCATAAGACAAACTAAGGAAAGCCACAGCTTAAAGAGATCTGAGAAGGGAGATGGACTGTCACTGGCAAGCCACGTGCCATCCAGGAATCAGAGATGTTGAAAATTTGGAAGACAGAAGAGCACTGTGGCTACCTATGTACCCACTGCAGTGGTTGAACCTGCCCTCATGTACCCAGAGCTAGGAGCCCTACGTGCTCTGTTGCTACAATGAAATGTTCGAGGTTGGGTGTTTCATATAGAAAATAGATGTATTTTGTCTATAGTTTTTTTTTTAAGTCCATGGTTAGGTGCCCTATGGGGAGGGGCATCATGACAGCATAGCAGGTGGTACAGGGGCTAGGAATGGCTTCCTGCCAGCCCTCCCCTCTCAGAGGACCACTCCTCCTCCACAACGGCACACCAAGGACTAGAAATACACAGTTAAACCACTCCAAACCACAGCAAGCCTCCCTCCTCCCCCCACCTCACCACGTAGGCTTTGGTTCTTGCTTCAAATAGGCCAGTCCATTTTGAATCCAGTCTCCTCAGCATCGTCTACTCTCCTAGTAAGGAAAAATCATGAATCAGGTTTGATCATCAAGTGAGTAATAGTACGGCAGGCCCACCGTGCCTCTGTCCCGTCAGGCTGCAGATCTGCTAACTGCAGATCCCACTCTGCAGCCCGATGTGTTTCCCCTTCCCTGAAGCTTAAGACTGAAGCATGCTAGAGACCTCTGTGTTCTCATCTGTAAAGTGGGACAGTAGTGACACCAGCCTTACAGAGTTGTAGTTAGTAAAGCCTGGTGATTAGTAAGTGTAAAATACTTAGCATCTAGGATGTAGCAAATATTCTTAAATGGCAGCTTCCTTTAGAGGGGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGCGCACTTCAAGCACATGCAGAGATCAGAAAGAATGGGGTATCTTCCTCTGTTGTTCTCCACCTTATCATTTGGGACAGGATCTCTCAATGAACCTGAAGCTTGGTTCATGGCAGCATGACAGATGCCACCATCTTCACAGACTGATTATAATAGGGAAACATAACATGGTGTGACCTTTAAAACTCCAGCGTGATATTTTTTTTCTACCTCACAACCTTTCTGTCTACCCTGGCGCCCTATGCTGAGTACAGGGCTCCTTCTGTGTCCCACTAAAACCGTCATTTACCATCATGATTATAGCTGTCACCTGGAAAACCATTGCCTTTGGCCTTTGCAATGATGGAGACTGTGAACCTAGCCACACCCTGATAAGCAGTAACTACGTGAGCGATTACCTTCATGGATATAACAAACTGGACAAAAGCTATGGATAGGCCGCACCAGTGAGCACTCACACCCCACCTCCATCAAGCTTTTGTATGGGATTTTTAATCTTCAAAAATCTAATGTGGGGACAGTCCTAGTTACTGCCATTTACTGATTGCAAAACTGAGGTCTTGGGTTTAGTGACTTGCCCAGATCCAGAGCAGAGCTGAGCTCTGAGCCAGAGTCATGGCTGCCGGCTGCTGCGGTTCAGAGGCTGCTGTCTTGTTATTCTAAGCAAAGCTTCACCCAGGCTGGCACTGGACTAGGTCCTCCTGCACACAGCACTGTCTAGACTAGCTTTGTATTCAAACAAGAGTTTCCATTGTTCTTGTTTTGAGACAGGATTTCATGTTGCACAGGTTAATTTTAAATCCACTATGTAGCCCAGGCTGAGGTTGAACTCCTGAATCTCCTAACTCTGCTTCCTGAGTGCTGAGATAATGGGTCCGCAACACCTCTGTGTGTTTGTTTTGGGGGGGTTGGAGCACAAAAGCGTGAGTTGTCCCTAACAGAAGCTCTGTTTTGTTCCAG
Seq C2 exon
GTTCTGACAAGTGGACATCCCTAGAAAGAAAACTGTTTAATAAAGCATTGGCCACTTACAGCAAAGACTTTATTTTTGTACAGAAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064043-Trerf1:NM_172622:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0024926=Myb_DNA-binding=PU(48.3=93.3)
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:
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: