RnoINT0068485 @ rn6
Intron Retention
Gene
ENSRNOG00000054725 | Gtf3c4
Description
general transcription factor IIIC subunit 4 [Source:RGD Symbol;Acc:1592609]
Coordinates
chr3:7409946-7412897:-
Coord C1 exon
chr3:7412767-7412897
Coord A exon
chr3:7410035-7412766
Coord C2 exon
chr3:7409946-7410034
Length
2732 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
ACTGACCTGTCTTCTTTCAGGTG
3' ss Score
13.08
Exon sequences
Seq C1 exon
GTCTTGATTGGACATATCTCCAAGAAGATGAACAAGCAGACCTTCCCTGAGCGCTGCAGTCTGTGTAAGGAGATCTTACCATTCACAGATCGCAAGCAAGCTGTTTGTTCCAATGGGCACATCTGGCTCCG
Seq A exon
GTAAGCCCCCAAGGCTGCTCACCCTTACATTTCAGTTTTGTGTAGCATAGAGCCACTATCCAGGGCTGATCTGGTTGACAGACAAAACTTTTCCTCCAGCCTATGACTTCATTTCTAGTGCAGCTTCCTTGTCATCGCCACAGTGCCTAGCCTTTGGTCACCCACTGTTCCTAAAGTGTTCTCTTATTGGTTGTATACAGATACATTTGTATCTGCTTCGGTCCAGACTTGCCTGCTTGGCGTCTTTAAGTGTTCCTGCTTCACTTCACATGGACCCCCACCCCCCACCCCACCCCACCCCCCCGCCTCTCTAATCCTCCCCTAGCCCCCGACACTGTTCATGCACTTGATGGCAGCTATCTTCCACCTGAGCCTCCTGCTCCCATACTCGAGCCCTCAGTCTGTTCTCTGCAGTTACAGTCATGACACTCAGTCTCTGTCTGCTCTTGTCATGTCCGTCCTCAGTACTCTCCACTAGGGCTGGGGTCTGGGTCCCTGAGAGAACACATATAGCATTTGCAAGGCACAGTTCTGCCAAAACCAACAAAAGCTCTCCAAGAGCTGACTAACCATTTTTGATGGGAAAGCTAAAACTCTTAGTGACTTGCAGACCCTCACAGCCTGTTCTTGCTTCACACCCTCATTCCTGCTCTGAACTCAGGTAACCTGGCCACCATGCTCGGGTCAGTATGGCCCCTCTCCCACTTGAGGACACAGTAGATTTCCTGATGCTCCCTCGGCTTTCTCTCACATGTGCACACACTTAACCTAGTGCTATGTATCCCTCTGCTTTTTCTCCTTATGACCACATTTCATTCTTTTTTCTTTGTCGTTTGATTGTTTTTTAAAGGCTGAGTTGTCCTGTAGCTCAAGCTGGCCTTGAACTCACAAAACTGCTGAGTGCTGAGATCAAAGGCATGCATCACCACACAAGGCGCTTTTATACCTTTGCCTGACACCCTTCCTTTGGACTAGGCAGTTGTGTGAGTGCAGAGTCTAAAGCAGTGTCTGCCACCCTCAGCAGACATGTCGGGTTTATCTAACTAAGCAGGTCTATGCTATGCAAAGCATTTACTCATTTTCTTTCTTGTTTTGTTGACAGATCTTACCATAGGCTGACCTCAAACATAAAAATCCTCCTGCCTCAACCTCCCAGGCATGTGCCACCATGTCCAGCAAGGGTTCCATTGGGGGAGTTGAAACACAGTTTCTCTTTAGACCATGCTGGCCTCAACCTCAGAGATGCACTTGCGTCTGCTCCCAGATTCTGGGACTAAAGGTGTGTGCCACCGCTGCCCAACCAGGGTTCACCTCTTGCAGAGGTGAGGCTGGAGCTCTCAGTCATACGGGCGCTCTCTGGTTAATTATCTTACTGACACATTTGTTTTTTCACTTTGTCCAGACCGTTTTCTCCTTGAAGGGAGAGGACAGTTAGCAATCTAATACTGGATGAGCTCTAGAGTTATAATCAAAGTAGCATCTGCTGAGCAGCCAACTTGCCAGACAGATTGGGACAAATGCACATCTGTCAAGTGACCGTGTCCTCACAGTGGTCACACACAGGGCAGATTTGCATTTTATAGGTAGAGTGCTATTGGGGAACAGCTCAGAGCCCACACACAGTTAACACTGCCTGCCCATACCTCCCACATCTGTGGGTTGTTTCACAGAAGTTGTTTTTCATTCTTCTGATTAAGGTTAGTCTCAAAATGCACTGGTATGATTTCTCTCAGGTAAACTCTCTTTTTCTGTATCTCTAAGTCCCAAGGTCAACTTTGGAGTCCCTCCCCCAACCTCCCATTTTCTAATCTTTAGTTGCTTACCTGAATACCGTTGCTCCTTGGAATTTTGGCATTTATTAGTTTGTTTGAATTTCGTCTTCAGTACCTAAAGAGAAGGGGGCCTGGAGTGGGGCTGTTCGTCGTGTGTGGTCTATGTGCCTGAGGATTACGTTCACTTCTGTGTGTAGAATCTGGAGTAGAGCAAGTGTCCTCTATCAGTCTCCATTCTCTTCCTTTGCTGCAAAACCTCTTTCTGGACTAGACCTCACACTTTTCTGCTGGGTTGCCTGGCAACAAGCCCCAGTGAGTCTCCTGTCTCTGCCCTGCTCTGTACTGGGCTGCAGATGCAAGTGGGAATACAACTGGCTTGTGACATCGGTGCTAGAGTCTGGACTCAGGTCCTCAGTCTTACACAGCGAGCACTCTTACCTTCAGAGCTATCTCTCCACCCCAGTACCTAAGGCAGTGGTTCTCAACCTTCCTGATGCTGTGACCCTTTAATACAGTTCCTCATTTTGAGGTGACCCCCAACCATAAAATTATTTTCATTGCTACTTCATAACTAATTTTACTACTGTTATGAATCATAATGTAAATATGTGTTTTCCAATGGTCTTAGATAACCTCTGTGAAAGGATTGTTCAGCACCTTCCTGGGGTCTCAAACTACAGGTTGAGAACAGCTGACCTAAGGGCTCTTAAAAATGGTCTGTATACCTTATCTTGAAAAGTAATGAGTGGCTTTGCATATGATATGTGAGTGCTGTTGATGATACCGAGAATGCAGTTAGGGAGGACCAAATGGAGCTGTTGTTTCCCAGTGCTTCTGGAACTTTCTCTAGAGAAGTTTTGTGTCTCTTCAGAGAATGCTGGTGTAGATTTGGCCACACAAAGCATTGCCTGATAACTATGGGCCCAGGGAGCATCCTCTGACTGACCTGTCTTCTTTCAG
Seq C2 exon
GTGCTTTCTAACCTACCAGTCCTGCCAGAGCTTGATCTACAGGCGGTGTTTGCTCCATGACAGCATCGCCAGGCACCCTGTTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054725:ENSRNOT00000088339:3
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
Other Skipping Isoforms:
NA
Associated events
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]