DreINT0075881 @ danRer10
Intron Retention
Gene
ENSDARG00000067979 | gtf3c5
Description
general transcription factor IIIC, polypeptide 5 [Source:ZFIN;Acc:ZDB-GENE-060810-66]
Coordinates
chr21:11289992-11290480:+
Coord C1 exon
chr21:11289992-11290134
Coord A exon
chr21:11290135-11290209
Coord C2 exon
chr21:11290210-11290480
Length
75 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAA
5' ss Score
4.78
3' ss Seq
ACAAGGCTTTGTCTTTGCAGGTC
3' ss Score
8.85
Exon sequences
Seq C1 exon
AATACAGAATCTCATCCATAAGAATGATGGGAAAGAGGAAGTGTGTGATGAGAGAGATGGCTGGTGTGTTCCTCACACGGCCGATGAGCTCAGAAACATCATCTCAGGAATGATCCAACAATACGTCAAAGCCAACCGCCCTG
Seq A exon
GTAAAACACAAACAAAAACACAGTGCATTGCTGAATATTAAATGCAAAATAAAGCACAAGGCTTTGTCTTTGCAG
Seq C2 exon
GTCCATCCACACAGAAGCCTGTGAAAAGAAGAGCCAAAGATGTTGGCAGCGGAGAAGAGGATGATGAAGATGAAGATGACGATGATGATGAAGAGTACAAGCCCTCTGATGGGAGCGACAATGAAATGGAAACTGAGATTGCAGATTATATGTAGCGGCCCTTTAGTTTCATCTGTGGAACATATGCTTTATATATGTAAATGGTAGTGCAGTCAAATGATTAATCAAAATACATTAGTTCAAAATAAAATAAGTTCATATTTATAAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067979:ENSDART00000091835:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.367 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGATGAGCTCAGAAACAT
R:
CCCATCAGAGGGCTTGTACTC
Band lengths:
178-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]