MmuINT0074995 @ mm10
Intron Retention
Gene
ENSMUSG00000035666 | Gtf3c4
Description
general transcription factor IIIC, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2138937]
Coordinates
chr2:28833550-28840286:-
Coord C1 exon
chr2:28839883-28840286
Coord A exon
chr2:28835374-28839882
Coord C2 exon
chr2:28833550-28835373
Length
4509 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTGTCTATCTCTATTTTCAGGTT
3' ss Score
11.71
Exon sequences
Seq C1 exon
CGGGGCAAGGTGGCGAGCGTTCAGTGTGCCGGTAACCCGACCTCCTCGCTCCTAGTAAGATGAGCGAGGCGGACCAGGCCCTGGTGGGGCCCAAGGCCGACGAGCCCTCGCCGCCCGCAGAGGAGAAGGACGAAGGGGGCGGGAAGGAGGCGGCTGCCGACGCGGCCCCCGGGCCCAGCGCCTCGTTTCGCCTCATGGTGACTCGGCGGGAGCCTGCCGTGAAGCTGCAATACGCGGTGAGCGGGTTAGAGCCGCTCTCCTGGTCTGAGGACCACCGCGTGTCTGTGTCCACGGCTCGCAGCGTCGCCGTGCTGGAGCTTATCTGCGATGTGCACAACCCAGGCCAGGATCTGGTGATCCACCGCACCTCGGTACCCGCACCTCTCAACAGCTGCCTCCTCAAG
Seq A exon
GTAAGTCGCCTCCACCGCTTCTCCCGCGGACGCGCCACGGATCCCAAGGGAAGCTGGCCTGCACCCGGCTCTAGGATTCCATGTGCATCCAACTCTTAATGAAGGGGCTAGCCTCGCCGCAGCTTTTAAAAAGTCGTGCAAGCGTCTTCACTGTTCCTAGACACCCCCGCCCCCCCAGCCAGGATCCGCTATCCATTCCTTCATTACTGGTGGATGGAACAGTTAGAGCCGTTAGCCCCGGGATTTCTGGAACTCTTGTGACTCCACCCCGCAGCTGACCCAACCCCTGACCTGTCTACCGTTGCTCCTATTGTCTGGGGCCAACTCCCCAGGCCCTGGGCTGGCTTTGTGTTTTCATTCTGTAATGCAAGCGCCCTCCTCTCGCGCCACTTTTGCTTTGAGAAGAAAAACTGATCTATTTCGTTACCTGTTTGACGGTTTCATTGTGAACGGTCCTTGTGTCTCCTTGGGTAGACAGCTCTTAAATCTGGAAGTGTGATGAAAAATAAAACCTCGGAGAGCATCAGGTGCTTAGACTTCCAAGTCCAAGGTCTCTGTAACTCTATAAATTTACTGCCTTCAACTTCATATAACCCAAGTTTGCTCCTGAACTGTAGAGTTTCTAATTTTTGTTGTATTAATGTAACCATTTTCAAACATGGTTTACTTTAGTGAGCGATGTTCCTTTTCATAGTCTATAAATGTAAAAACTTACTTTTATTTTATTTATACCTTCTGTATGTATATGCAGTAGGTAATCTGTCAAAGTGGGTGTGTGTCAAGTGAGTAGGTGCCCAATGGAGTCTGGGATAAATCAGAGTAGAGACAGCCCCTGCCCTCAAGGAGGTTATTTATCCTTTGGCAGGTCATGAACAAATAATGTAGTCTTAATATCATGGTGTGCTATAAAGCTATACACACGTATAACAGTATGCTTATTTGAAAGTAAAGTTTTTCCATACTCTTCTAGACAGCCATTCCAAATCCAGGTGATTAATCACGGGTACCATTTGAGTAGCCTGAGCTCTTTTTAGCACACTTGATTCAAATTTCAAACACACTGTTGATTTGGATAATATGTTTATTTATTTTTTTTTTATTTTATTTGGTTTTTGTTTTTTCGAGAAAGGGTTTCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCACCTGCCTCTGCCTCCCAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACTGCCAGGCCTTTTCTCTTTTAAATAGCATCTTGAGCTTGATAATCTTGCCTGGGATTACAGACTCACAGATTTAATTAATTATTCAGCTTGACTGACTGAGTCATGTAAGATCCTAAGATCTGAGTGAAATGATTCAAATATAAACTGGTAGTGCTGTTGAAGTGATAAACATAGGAGGGAGGCAGAAGAAAGGTGCTGAAAAGCTGCACCCTCTGCTGAACTTACTGTTTCAATGGATATTCCAGTGCCCCTCAGCTAGGGAAAGTCTGGGCCTAGATGGTAAAAACTGACTGTTTAACAGAGAGTTTGGTGAAAGGAGTAGGAGGGGAGGCACTTAAATCAGAGGAGGTCACTGAGTCTGTAGCAGTCCCAAGAAATGATAGTGTTTGGTTTATCAGGAAGCTCAGAAAGGCTACTCAAGGTGGCAAGCGAGGCATCCTGCTCATGCACATGGATCTTTCATCATGAGTGGAGCTATGTGTGACTGTTTCTTGAGCATTGATGAATCGCCTGGAGCTGAAGATTTCTTCTAGAGTCAGAGAAAATGACACCAGTTTAGGAACTAGGAAGGTTAGTCCAGGAAGTTTCTTGAGTGCTGTTTCAGTTCATGAGGATAGTGTGATCTGGTATAGTTCAGGAGTGTGAGACTGCTTGGGCTAGAGGTAAGCAGATGATTGCTGGGCTGAGGCTAACAGAGGGCGTTAAGAGCCTAGGCTTTGGCACAAGATAGACCTAGCTATAACACAAAATAGTAAAGCCTTGTTTAGGCTTTATGAAAAATTAAGTTATACATACACAAAGCATCACCTACCATATAGCATTATCACTTAATGTCTGACACTGCCTTCATGCTCAATGTCCTCACGCTTGTCATCTTTCCTTCATGCTCTCCAGGCATGAAAGAAAAGCCTGGGGATTTGAAGGTGATACTAAGATTCTGATAAATTGACATTTTGCTACATTTGACATTTGCCACACTGTTTAAATAGTAGTAGAAAACCTTTATGTAGCCCTCTAATTGATAAAAGAGTTTACATGAGAGGCCTCCATTGTTGCAGTGGTATACGAAATCACCAGTTCTTCTGTGCCCTATATACTGATCATCCCTAAAGATTTAAATACCTCAAACAGCTAAAGCATTAAACACTGAACCATTTTTAAAGCTGTTGCTCTATGATTCTGTTAAATCACAGCTCAAACATTATCAGTTATATGTAAGTTACTATCTTGGATACTTCTAGGAGAAATGGTGGGTAATAGTTAGAACTTAACTGTCCATAGAAATCTTTTCTAGGGGCACTTCAGGATAGTGTTCTGTAGTGGCTTTTAGGAAAAGTTGGCTTGAGCTCTAGGAACCTGCTACCTCCACCTCACTCTAAGATTACAGGCATGTACCGTACCCAGCTTCTTACACGACGAGTAAAATGAATTCCGCTCCTGTGTTTGTAGGGCAAACTCTTCACTGGCTGAGCTTTCCCTAGCTGCATTGCTGTCTCACATGGTGTTTACCACTAATACATTGAGGAATTCTGTTATTGAGTAGGCTTAATAGTTTGCATGCACTTAAAAATCTTTTAAAATTGGTGTCTATTCTGGCTAGCATGGTCCTTAGTGATTATTTTCCATGTTTTGCCTGTATCCTAGAGCATTACTTCAGTGCTTGGGAACTTAGCATCAAGTCACTTTTAATAGCTATATACTAAAAGAATTTGGACTCCCTTGTAAATCATGTCCTACTCTTTCCATTTCCAAGATCAAGTTTCTTTAAAAAGTTTGGCACTAAAATCAAAATGGAAACTTGTACTTTTTCACTTTTCTCCTTTGTTTTCTTTGGCTATTTGAGATCAAAGTCTGGCCACGCATCCCCAGCTGTCCTGGAACTTGCTCAGTTGATATGCCTAGCTTTGTGACCACAGATTTGCACTGCCATGCCTTTTATCCACCTCTCTAAAAACAGATGGAGTTCTTCCTATTTTCAATCTGTGATGGGAATATTTTTAGATCAGCCTTTGTTCTTTTTTGGCTTTAACCTTCCTGGCTTTAATTTTAGTCATAACTTCCTCTGTCTTTACTGTCTCTTTAAAATCTTTTTACAGAGCTTTCATCATTTGGCTGAGCACATGATACGTGTTACAGACCCAGACATGGGGGTGATGAGACAAAGCTAGAATGATCTGAGAAGGCCTCCTAAGATTAGACCTGGTAAGATAGATGGGAAGGAGCAAGTCAGGCAAGGAGCCAGGAAAAGCAGTGGGTGGGCTAGAGAAGTCTGATAGGAGCCAGCTTACTTACAGCAAGAGTAGTAGACAAGGCAATGTGTGTGATTTGTTAAAGAAACTGCAGATTAAAAGGCCTAGCGTTGTTGTGTAAGGTTTAGCAGGTAAAAAACACAGACTTTGATGGCTTTGGTTCAATTTCTGGAACACACATGAAAAATGAAAAGCACAATGTGATGGCTTGCATCTTAATCCCAACATTCCTATAGTAAGATGGAAGGCAGAGATGGAAGAATCATGAGGAAGCTGACCAGCTAGCTAACCTGGAGTCCACAAGTACAGCAGAAACAAGAGAGCCCTTACCTCAACAAGGTGAGGGGGGCGTGGCATGTTAAAAATACATAAAATAAGAGGCTGGGTTGGGCTGGAAATGTACATGAGGCCTTTGATTTATCGTCAGCATGTGTCAGAACTATTATAAAAATCCAAATACCTAATTGTAGCAAAAATAAATATAGGTTCATCTTTCCCTAACTTTTAAAACTACTGCTGTTTTGTGACTGGCTTAGCTAAGTGTTCCCCTCACTCTTGAGGATCAAATGTGTATTCTATAGGCCAATTCTAAAATGGTCTAAAATATAGACAAGCCATGCATAGTCACATTTATTCTAAGTCATTTTTTAAAAAGCCATTTCTTTGAGTAAGTGAACATTTAATCTTTAAACATGCTTCATTTTTAAAATCACTATTGTTTGTTTTGTTTTGTCTGGAGATAGTTTTTCTACCTAGCTTTGGCTGGTTAAACGTATGATCTTCCTGCCTTAGCTTCCAGAGTGCTTGGATTAGCAGGTATGCATCACCACAACTGGCTAGTTGATCTTTTAAATGCACATAATGCTAAAATTAGCAGAATTAGTATAATATGTAGTAATATATATGTATATGATATAAAATTATTTTGTGTGTTAATACAGTTGCTATGGGTGGATATTTTTCTGATAGCTTGTCTATCTCTATTTTCAG
Seq C2 exon
GTTGGCTCAAAAACAGAAGTTGCTGAGTGCAAGGAAAAGTTCGCTTCCTCTAAAGACCCCACCATCAGCCAGACTTTCATGCTAGACAGGATGTTCAACCCCGAGGGGAAGGCCTTGCCCCCAATGCGGGGTTTCAAATACACTAGCTGGTCTCCAATGGGTTGTGATGCAAATGGCAGGTGCCTCTTGGCAGCACTGACCATGGACAATCGCCTGACTGTGCAGGTGAACCTCAACAGACTCCAGTGGGTTCAGCTGGTTGATCTGACGGAGATTTATGGAGACCGTCTTTATGAGACTAGTTATAGACTGTCTAAAAATGAGGCTCCTGAGGGAAATCTCGGGGATTTTGCTGAGTTTCAGAGGAGACACAGTATGCAGACCCCAGTCAGAATGGAATGGTCGAGTATCTGTACCACTCAGCAGGTCAAGCACAACAACGAGTGCCGGGATGTGAGCAGCGTGCTGCTGGCTGTCCTCTTTGAGAACGGGAATATAGCTGTGTGGCAGTTCCAGCTGCCATTCGTGGGGAAGGAGTCCATCTCTTCATGCAACACTATTGAGTCAGGAATCAGCTCCCCCAGTGTTTTGTTTTGGTGGGAATATGAGCACAATAATAGGAAAATGAGTGGCCTTATTGTGGGCAGTGCTTTTGGACCTGTAAAAATTCTCCCTGTCAATCTCAAAGCAGTGAAAGGCTACTTTACTTTAAGGCAGCCTGTTGTCTTGTGGAAAGAAATGGACAAGTTACCTGTGCACAGCATCAAATGTGTGCCACTTTACCACCCCTACCAGAAGTGTAGCTGTAGCTTAGTGGTAGCTGCAAGAGGCTCCTATGTGTTTTGGTGTCTTCTTCTGATCTCCAAGGCAGGTCTGAATGTTCACAATTCCCACGTCACAGGCCTCCACTCACTGCCCATCGTCTCCATTACTGCAGACAAGCAGAATGGAACAGTGTACACCTGCTCTAGTGATGGGAAGGTGAGGCAGTTGATTCCCATTTTCACAGATGTTGCATTAAAGTTTGAACACCAGCTGATTAAGCTCTCAGATGTCTTTGGCTCAGTGAGGACTCACGGCATTGCAGTGAGTCCCTGTGGTGCTTATCTGGCCATCATCACCACTGAGGGCATGATGAATGGCCTCCATCCTGTGAATAAGAACTACCAGGTCCAGTTTGTTACTCTGAAGACCTTTGAAGAGGCAGCTGCTCAGCTCTTGGAGTCTTCAGTTCAGAATCTCTTTAAGCAGGTAGACTTGATCGACCTGGTCCGCTGGAAAATTTTAAAAGATAAACATATTCCTCAGTTTTTACATGAAGCATTGGAAAAAAAGATTGAAAGCAGCGGGGTTACCTATTTTTGGCGTTTTAAGCTTTTCCTTCTAAGGATTTTGTATCAGTCAATGCAGAAATCCCCTTCCGAGGCCTTATGGAAACCCACCCATGAGGACTCAAAAATCTTACTGGTTGACTCACCTGGGATGGGCGACGGTGAGGATGAGCAGCAAGAAGAAGGTACTTCCAAGCAGGGGACTAAGGCTGGCCTGCAGGAGAAGAGCAAAGAAGGTGACACAGAGGAGACCCCTGAGGACTCACTCACTGCAGGGGGAGACACCGGAGGCCGTGAACCTGTAGAGGAAAAGCTCCTTGAGATCCAAGGGAAGATTGAGGCTGTGGAGATGCACCTGACCAGGGAGCACATGAAGCGGGTCCTGGGAGAAGTGTACCTGCACACCTGGATCACAGAGAACACCAGCATACCCACCAGAGGGCTCTGTAACTTCCTGATGTCTGATGAGGATTATGATGACAGGACAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035666:ENSMUST00000037117:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.430 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF126572=TFIIIC_delta=PU(29.9=50.4)
A:
NA
C2:
PF126572=TFIIIC_delta=PD(69.1=22.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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
- 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