GgaINT1014424 @ galGal4
Intron Retention
Gene
ENSGALG00000026104 | GTF3C4
Description
general transcription factor IIIC, polypeptide 4, 90kDa [Source:HGNC Symbol;Acc:HGNC:4667]
Coordinates
chr17:6640530-6641353:+
Coord C1 exon
chr17:6640530-6640660
Coord A exon
chr17:6640661-6641264
Coord C2 exon
chr17:6641265-6641353
Length
604 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
AACAACTTGTCCTTTCACAGGTG
3' ss Score
9.81
Exon sequences
Seq C1 exon
GTGCTGATTGGGCATATCTTAAAGAAAATGAACAAACAGACTTTTCCAGAGCACTGCAGCTTGTGCAAGGAGATCTTGCCGTTCACTGACCGCAAACAGGCAGTCTGCTCCAATGGACATATTTGGCTCAG
Seq A exon
GTAATCTGTTCTTAGAATTTTTGCCTTTCCCTTCCTCCCCTACATAAATTAAACATGTTTAAATAGCTAACATGAAATACTTTGTAGTTTTGGAGTGAGAAGTCATGAAGTGTGTTGCCATACTGCAGTTAATTGCTTTTTTTTTTTTTTTTGCTGGCTCTTATCTGTCCTCATCCCTGAAAGAGAAGACACTGTAGTTTGGACTTGGATCAGTACACTGTTTTCAAAATAAAATGCTTTTGATCATTTAACTCTTTTCTTCAAGCAGGGGGAGGGATGGGGCAGGGAGAAAGCGGGGGGAGGATGGGAAATGAAGCACACATCACCCTTTGGAACAGCACATGAAGGAGTTCTAGCTACTTCAGCACTGAAAACAAAGTGAAAATGGTAGGCTGCAGCTATGCTGAGAAGTCAGATGCATTCTGGAATATCTAGAAAAGGAAATCTTTCTGCATGAACATATTAGGATGCTGTTGGTCCCTGGAGCCTTAGCATGGTGCTGTTGGGAACAGAACCCAGCCAGCCTGTGGGCAGGGTGTGTGAGCAGGTAACCAAACGATCCAACCCCAAGCTTTGTGATTAAAAACAACTTGTCCTTTCACAG
Seq C2 exon
GTGCTTTCTAACCTACCAGTCCTGTCAGAGTTTGGTATACAGAAGATGTTTGCTTCATGACAGCATTGCACGGCATCCGACCCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026104:ENSGALT00000045320:3
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(42.7=86.4)
A:
NA
C2:
PF126602=zf-TFIIIC=FE(33.7=100)
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:
GTGCTGATTGGGCATATCTTAAAGA
R:
CTTCTGGGGTCGGATGCC
Band lengths:
220-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]