MmuINT0074997 @ mm10
Intron Retention
Gene
ENSMUSG00000035666 | Gtf3c4
Description
general transcription factor IIIC, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2138937]
Coordinates
chr2:28827478-28830632:-
Coord C1 exon
chr2:28830502-28830632
Coord A exon
chr2:28827567-28830501
Coord C2 exon
chr2:28827478-28827566
Length
2935 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
GGGCTCCTGTCTTCTTTCAGGTG
3' ss Score
12.05
Exon sequences
Seq C1 exon
GTCTTGATTGGACATATCTCCAAGAAGATGAACAAACAGACCTTCCCTGAGCGCTGCAGTCTGTGTAAGGAGATCTTACCATTCACAGATCGCAAGCAAGCTGTTTGTTCCAATGGGCACATCTGGCTCCG
Seq A exon
GTAAGCCTCCAGGGCTGCTCACCCTCATGGCTCAGTTTTGTGCAGCACGGAACCACCGGTCAGGGCCCTTCTGCTTGATGGGTACAACTGTCTGTGCTTGCTTGGACTGCCATTTGCCTTGCAGGGTTGAGGTCGTAGATTATACTTGTGTGCCTTTTTTGGCTATGTTTCATAGTAACAGGCATTGGAGAGGAGATGAGAGGGCATCAGAAAGAATAATCAGAATGCTCTGTGTGTGTGTGAAGTTGTCAGATGGCAAAAACAATAGTTTTCATAATGAAAGAATGCTGTCCTGTTAGTCTGGCCTTAGAGGTGACCTTGGTGAGCCCTCAATTTTGCTCCCTCCATGAGATGTGTCATCACCTTCTCCCAAGACACCATGCTTCCTACTTTTCCTCCAGCCTCTGACTTCATTTCTGGTTGTGCAGCTCCTATGTCATCTCCACAGTGCCTATCCTTAGGCCTAGCCTTTGGTCACACACGATTACTAAAGTGTTCTCTTACTACTGGTTGTACACAGATACACCTGCATCTGCTTCAGTCAAGACTTGCAAGTTAACTTCCTGCCTGCTTGGCATCTTTATTTAAGTGTTGCTGCGGGACTTCATGTGGAATCAAACCCTGACTTCATTTTTGCCTCCATAGCCCTCTCCCAGACCCTGACATTGTTCATGCACATGATGACAGCTATCGTCCACCTGGGCCTGCTGTTCCCATACTTCAGCCCTCAGTCAGTTCTCTGCAGTTGTAGTTATGACACTCAGTCTTTGTCTGCTCTTGTCACAGCAGTCCTCAGTACTCTCCACTAGGGCTGGGGTGTGGGTCTCTGAGAGCACACTTCTAGCATTTGCAAGGTACAGAACCAACAAAAGCTCTCCAAGAGCTAACCGTCTGATGGGAAAGCTAAAACTCTTTCAGAGACTTGCAGCCTCTCACAGCCTGTTCTTGCCTCTTCACGACCTCATGTCTGCTCTGAGCTCAGGAGAACTGGCCACCTGCTCAGGTCAGTATGGCCTCCTGCTGGCTGGCATCTGCAGGGACACAGTCGGTTTCCTAATGCTCCCTCAGCTTCTCTCACATATGCACGTGCTCCACCTAGTGCTAGGATTCCTTTGCTTTGCTGCTTTTTCCTTATAACCCATTTCATTCTTTTTGTTGTTTGTTTGTTTGATTGTTTTTTTAAAGGCTGGGTTTTCCTGAAGCTCAAGCTGGCCTTGAACTCAGAAAGCTCTGCCTGCTGAGTGCTGGGATCAAAGGCATGCATCACCACACAAGGCACTTTTATACCTTTGCCTAATACCCTTCCTTAGGACTAGGCACTTGTGTGAGCGCAGAAGTCTAAAGCAGTGTCTGCTACTACTCAGCAGAAATGTTAGATTTATCTAACTAAAGCAGGCCTATACGACACATAGCATTTACTCATTTTCTTTCTTATTTTGTTGACAGATCTCTCCATATTGTTAGGCTGGCCTCAAACATAAAAATCCTCCTGCCTCAACCTCCTAGGCATGTGCCACAATGTCTAACCAGGCTTCCATTTTCTCTTTTAGGGGTGGCAGAGGGAGTTAAAACACAGTTTCTCTTTGTAGCCCTGGCTGTCCTCACTCTGTAGACCATGTAGGTCTCAACTTAAGAGATGTGCTTGCCTCTGCTCCCAAGTTCTGGGACTAAAGGTGTGCGCCACCACTGCCCAGCCAGAAGTCAGTTCTTAACAGAGGTAGAACCGGGGCTTTCCATCATATCGGTGCTCTCGGATTGCTTCTCTCATGGACACATTTGCTTTTTAGTTTGTTCAGACTTTTTTCCTTGAAGGGAGAGAACAGTGGCAGGCAGTCTAATACTGGGTGAGTTTTAGGCTTGTCATCAAAGTACCATCTGTTGAGCAGCCAGCTTGCTAGACAGATTGGGACAGATGTGCAGCCATCAAGTGACTGTATCCTCACAGGGGATTTTATCTTCAGTACCTAAAGAGAAGGGGGGTGGAGTGGGGGTGTACATGGTGTGTGGTCTATGTTCACTCTGTGTGTAGAATCCTCTATCACTCTCCACTTTATAGTGCTGCTGCAAAGCCCCTTTCTGGACTAGACCTCACGCTTTTCTGCTAGGTTGCCTGACAACAGGCCCCAGTGATTCTATCTCTGTCCTGCTCTGTACTGGACTATAGATGCCAGTGGGAACCCAAATGACTTGTTACATCAGTGCTGGAGTCGCTTACACAGCGAGCGCTCGTACCTTCAGAGCTATCTCTCCACCCCAGTGCCTAAGGCAGTGGTTCTCAACCTTCCTGATGCTCTGACCCTTTAATACATTTCCTCATTTTGAGGTGACCCACAATCATAAAATTATTTATATTGCTACTTCATAACTAATTTTGCTAGTTATGAATCACTATTGATAGTTACATTATCTGTTTTCCAATGGTCTTAGGTAACCTCTGTGAAAGGACTGTTCAACACCTTTCCTAGGTCTCAAACTACAGGATGAGAACAGCTGACCTAAGGGCTCTTTCCTTTGGTTTTTTGGTTTTTTTTGTTTCTCGAGACAGGGTTTCTCTGTGTAGTCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTTTGCCTCCCAAATGTTAGGATTAAAGGCGTGCGCCACCACTACCCAGCTAACCTAAGGGCTCTTAAAGATGTTTTGTATACCTTATCTTGAAAAGTAAAGAGAGTGACTTTGCATATGATATGTTTGCATATGATATGTTTATAATACCAAGAATGCAGTTAGGGAGGAGTGCTTCTAGGACTTTCTGCAGAGAGGTTCTGTGTCTCTTCAGAGAGTGCTGGTATAGATTTGGTCACACAGAGGAAAACATTGCCCTAGTAACTGTGGGCCCAGGGAGCGTCCTCTGACTGGGCTCCTGTCTTCTTTCAG
Seq C2 exon
GTGCTTTCTAACCTACCAGTCCTGCCAGAGCTTGATATACAGACGGTGTTTGCTCCATGACAGCATCGCCAGGCATCCTGTTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035666:ENSMUST00000037117:3
Average complexity
IR
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:
PF126602=zf-TFIIIC=PU(43.3=88.6)
A:
NA
C2:
PF126602=zf-TFIIIC=FE(33.3=100)
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