MmuINT0075000 @ mm9
Intron Retention
Gene
ENSMUSG00000026816 | Gtf3c5
Description
general transcription factor IIIC, polypeptide 5 [Source:MGI Symbol;Acc:MGI:1917489]
Coordinates
chr2:28423128-28424147:-
Coord C1 exon
chr2:28424005-28424147
Coord A exon
chr2:28423305-28424004
Coord C2 exon
chr2:28423128-28423304
Length
700 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
AGCTCTTTTCTCCAACACAGGTA
3' ss Score
8.02
Exon sequences
Seq C1 exon
GTTGCAGAAAATTGTTCACCGAAACGATGGGACAGAGACTGTGTGCACAGAGAGAGATGGGTGGTGCCTCCCCAAGACCACAGATCACCTGAGAGACACCATGTCACTCATGATTCTACAGACCATCCGCTCTGAGAGGCCTG
Seq A exon
GTGAGAGCCACTTGTGCAGGGAAGCCTCAGACCTATTCGAAACCGGTCTGACAAAAGCTGGCAAAAAGCTCCAGAGAGCCTCAAACTATCCGTGGTGGGAGGGGGTCTGTGAGCCAGGACTCAGCCGTGACACTAAAGAGTGCAGACAAGAAGGAAGAAATGCTGCCTCCTAGTACAGGAAGGCCAGCTCTGCCCATCTCTCCCCTGGGGCTGTGTGGCTCCGTGGCTCCTTTCTCAGAGCCTGGGCTCGCTCCTGGGGACACAGGAAAGTGAGGTACTTGCTAGGCTGGGGTCTCCAAGGGGCCCTGAAGAGCAATGCAAAGCTCTTGTAAAGGACTCCTTCCGAGCTGGGTAGCAGGCATCTGAGTAGAGCAGGCTTCCTGGCTGTTTGAGGTGTAGGCTTCACCTCTTGGGACCCCAGTCAAGGCTTTGAAGCTTTTCTGGGAATTATGGTGTATGCCCCCTCAAGGTGCAATGGGCCCCAGGCTGCTCATGGTTCTCCCCAGAAAATGGGTTCAAACATGCCTACTAGGCTCCCTGCCTGTCCCCATCCCTGTCCCCACCCCCACCCTCATGCTCTCCTTCGTGGCAGATTCATTGCTAGAGCCTGTCACAGTGAAGGGACTCTAGGGCTGCCTAGGAAGCCTGTGTTGGAACACAGCCTTCTTTCCTTCGTGTACAGCTCTTTTCTCCAACACAG
Seq C2 exon
GTAAGGCTGATCGTGGGAAAGAGCAGCTGATGTTTGAATCTGGAGAGGAAGAGGAGGAGGAGGAGGAAGAGGAGGAAGAGGAGGAGGAGGATTTCAAGCCCTCAGATGGGAGCGAGAATGAGATGGAGACAGAGATTCTGGATTACGTGTGAGGAAGCGCTGTTCCCAGGCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026816-Gtf3c5:NM_148928:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.378 A=NA C2=0.985
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCAGAAAATTGTTCACCGA
R:
GGGAACAGCGCTTCCTCAC
Band lengths:
310-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: