RnoINT0068483 @ rn6
Intron Retention
Gene
ENSRNOG00000054725 | Gtf3c4
Description
general transcription factor IIIC subunit 4 [Source:RGD Symbol;Acc:1592609]
Coordinates
chr3:7415847-7422738:-
Coord C1 exon
chr3:7422321-7422738
Coord A exon
chr3:7417674-7422320
Coord C2 exon
chr3:7415847-7417673
Length
4647 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCTCTATCTCTTATTTTCAGGTT
3' ss Score
11.32
Exon sequences
Seq C1 exon
CTCTGGGAGCGGCCGAGCGACGGTGGCGAGCGCTCGGTGTGCCCGGTAACTCGACCTCCTCGCCCGGAGTAAGATGAGCGAGGCGGACCAAGCCCGGGTGGGGCCCAAGGCCGACGAACCTTCGTCGCCCGCAGAGGAGAAGGACGAAGGGGGCGGGAAGGAGGCGGCTGCCGACGCGGCCCCGGGGCCCAGCGCCTCGTTTCGCCTCATGGTGACTCGGCGGGAGCCTGCCGTGAAGCTGCAGTACGCTGTGAGCGGGTTGGAGCCGCTCTCCTGGTCTGAGGACCACCGTGTGTCTGTGTCCACGGCCCGCAGCATCGCCGTGCTAGAGCTTATCTGCGATGTGCACAACCCAGGCCAGGACCTGGTGATCCACCGCACCTCGGTACCCGCTCCTCTCAACAGCTGCCTCCTCAAG
Seq A exon
GTAAGTCACCTCCACCGGTTCTCCCGCGGACGCGCCACGGATCCCAAAGGTAGCCCGACCTGCACCTGACTCTAGGATTCCCTGCGCATCCAACTCTGAAGAATGAAAGGACTAGCATTGCCGCAGCTTTTTAAAAGCCTTGAAAGCTTTTGCGCTGTTAATAGACACCCCCCGCCCCGAGCCAGGATCCGCTATCTATTCTATTCCTTCTTGCTTGGTGGAACAACTATCGCCGTTTGTCCCGGTTTTTCTGGGACTCTTGTGACTCCACCCCCAATGACCCAACCCCTGACCTGTCTCTACCGTTGCTCCTATTGTCTGGGGCCAATTCCCAGAGGCCCTGGGCTGGCTTTGTTTTTTATACTGTATTGCAAGCGCTCTCCTCTCGCGCCACTTTTGCTTTTAGAAGAAAAACTGGTCTATTTCGTTGTCTTACCTGTTTGACAGTTTCATTGTGAACGGTCCTTGAATCTCCTTGAGTAGACAGCTCTAAATCTTTGGAAGTTGGATGAAAACTAAAACCTCGGAGAGCATCCAGTGCTTAGATTTCTAAACTCTAAATTTAGTGCCTTCAACTTCATATAACCCAAGTTTGCTCCCGAACTTTAGGGTTTCTAAAGTTTTGTTTTATAAATGTACATTTTCAAACATGGTTTACTTTAGTGAGCAATGTTTCTTTTCATAGCCTAGAAGTGCAAAAGCTTACTTTTATTTCTACTTCTGTATGTATATACAGTATGCAATCAATCAAGTTGAGTAGGTGTCCACCAAGTTCTAGGATAAATCAGAGTAGACAGCCCCTGCTCTCAAGGAACCTACATCCTTTGGCAGGTCATGAACAAATAATGTAGTCTAATAGCAAGGAGTGCTAAAAAGCTATATGTGCATATAGCGGTATGCTTACTTGAAAGTAAAGTTGTTCAATACTCTTCTAGACAGTCATTCCAAATCTAGGCAGTTAGTCACGGTACCATTTGAGTAGCCCTCATGAGCTCTTTTTAGCACACTTGATTCAAATTTCAAATACAATGTTGAATGTGGATAATGTTTTTGTTCTTTCTTTCTTTCTTTCTTTCTTCCTTCCTTTCTTTCTAATAGCATCTTGAGCTTGATAATCTTGTCTGGAATTACTACAGGCTTACAGATTTAATTAGCCAGCTTGACTGAGTGAGCCATGTAAGCTCTTCTTAAAGAACAACTGAATGAAATGATTCAAATGTACACTGATAGTGCTGTAGTACCATTTAAGTGATACACATAGGGAGGGAAACGGAAGAAAGGTGCTCTGGACAGCTGCACCCTCTGCTGAAAGGATTGCTTCAGTGGATATTCCAGTGCCCGCCAGTTAGGGAAAATCTGCACCTAGATGGTAAAAACTGACTGAGTTTGGTGAAAGGAATAGGAGTGGGGAGACACATCAGGGAAGATCACTGAGTCTGTAGCAGTCCTAAGAAATGGCAGTGTTTGGTTTATCAGGAAGCTCAGAAAGGCCACTCAAGGTGGCAAGCAAGGCATCCCGTCATAGATCTCCCATCGTAAGTGGAACAGTGTGACTGTTGCTTGAGTATTGATGGATTGCCTAGAGCTGAAGAATTCTTTCTAGAGTCAAGAAAGTGACACCAGTTTAGAGACTAGGAAGGTTAGTCCAGGAAGTTTCTTGAGTGCTGTTTCAGTTCATGAGGATAGAATGATCTAGTGTAGTTTAAGAGTATGAGACTGCTTGGGCTGGAGGTAAGCAGATGATTGCAGGGCTGAGGATAAAAATGGGGGTTAAGAGACTGGGCTTTGGCACAAGATAGACCTAACTATAAGACAAGAATAGTAAAGACTACCTTGTTTAGACTTTATGGAGCTTTAAGTTTGATACATAAGACATCACATAGCATATAGCACTATCACTTAATGTCTGACACTGAGTTAATGCCTTCATACTCTAATGTCCTCAGGTTCTTCATCTTTCCTTCATGCTTTCCAGGCTTGAGGAAAAGCCTAGGTTAATGTTGTATATGTGGATCTGCACTTGATCTTAGCCAAAAGGCCAAGAAGCAATGTATATGTGGATCTGAAGGTGATACTAAGAGTCTGAGAAATTGGCTGACATTTTGCTACATTTGACATTGCCACACTGTTTAAATAGCAGTAGAAAATCTTTATGTAGCCCTCCAATTGATAAGGAGTTTACATGAGAGGCCTCCATTGTTGCAATGGTATAACTATAAAGAAATCACCAGTTCTTCTGTGCCCTACTACTGATCATCCCTAAAGATTTAAATCTGTTCAGTCTTGTCCAGCTAGTTATTGCCTCAACTCAATAGCAGATAATTTGTAGCCTAGGGGAAGGTTTTTAATATGTAGAACAGCTAAAGCACTAAACACTGAACCGTTTTTTGAAGCTGATGCTCTTATGATTCTGTTAAATCACAGTCAAACATTATCAGTTATACGTAAGTTATTATCTTGGATACTTCTAGGAGGAGTGGTGGGTAATAGTAAGCATTTTCAGAACTTAACTGTCCATAGAAATCTTTGGTAGGAGCACTTTAGGATAGTGTTCTGTAGTGGCTTTTAGGAAAAGTTGGCTTAAGCTCTAGGAACCTGCCACCTCCACCTCAGTAAGATTACAGGTATGCACTGTACCTAGCTTCTTTTTTTTTTTTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGTGCTCTACCACTGAGCTAAATCCCCAACCCCTGTACCTAGCTTCTTAACAGGAGTAAAATGAATTCCATTCCTGTGTTTGTAAGGCAAACTCTTTACTGATAAACCATGTCCCCCGCTTCACTGCTACCTCACATAGTGTTCAATGCTAGTACATTGAGGAACGCTGTTACTGAGTAGCCTTAATAGCTCGCATACACTTAAAGATCTTTTAAAAGTGGTGTCTGTGCTGGTTCACACTGCTAGGATGCATGCACGGGTTCCTAGTGGTTATTTTCCAAGTTTTACTGTGTCCAGAGCATTACTTCAGTGCGTGGGAATTTACCATCAAGTCACTTTTAATAACTCCATATACTAAAGGGATTTGGACTTCCTTGTAATCATGCCCTACTCTTTCCATTTCCAAGATCACATTTCTTTAAGAAGAGTGGCACTAAAATCAAAATGGAAACTTGTACTTTTTCACTGTTCTCCTTTATTTTCTTTGGCTATTTGAAATAAAAGTCTGGTCACATACCCGCAGCTGTCCTGGAACTTGCTGGGGTGATAGCTACTGACTCTGATTACAGATGTGCACCACCATGCTTTTTATCCATCTCTCTAAAAACAATAGTGTTCTTCCTACTTTCAGTGTGTGTGCTAGGAATATCTTTAGATCAACCTATGTTCTTTTTGATTCAGTCCTGGCTTTAATTTTAGTCATAACTTCCCCTGTCTTTACTGTCTCTTTAAAATCTTTTTACAGAGCTTTCATCATTTGGCTGAACACATGATACATGTTACAGACCCAGAGAGGGGGGTGATAAAACAAAGCTAGAATGATCTGAGAAGGCCTCCTAAGATTAGACGTGCAAAGATAGGTGGGCAGGAGCAAGTCAGGCAAGGTGGCCAGGAAAAGTAGTGGTTGGAATAGAGAAGTTTGATAGGAGCCAGCTGACTGATAGCAAGAGTAGTAGAGTAGTAGACAAGGCAATGTGTGTGGTTTGTTTTAAAAAAAAAAAAAAAAGCTGCAGATTAAAACGCCTAGAGTTGTTCTGTAAGGTTTAGCAGGTAAAAAGCACAGACTTGGTGACTTTGGTTAAATCTCTAGAACACACATGGAAATGGAAAGCCCAGTGTGATGGCTTGTGTCTTAATCCCAACATTCCTTTAGTTAGATGGAAGGCAGAGGTGAAGAATCAGGAGGAAGCTGACCAGCTAGCTAACCTGGAGTACACAAGTACAACAGAAACAAGACAGCCCTTACCTCAACAAGGTGAGGGGGCGTGGCATGGTAAAATGAATAAAGAGGCTGGGATTGGGCTGGAACTTTGTTTTATCTCGACTATAAGTTCATAGTTCCCTAACTTTTAAAACTACTGTTGTTTGTAACTGGCTCAGCTAAGTGTTCCTCTCACTCTGGATCAAATGTTAACTCCATAGGCCAATTCTAAAGGGAATATAGACAAGTGGTGCATAGTCACATTTACTTTAAGTTAGTTTTTCAAAAGCTATTTCTTTGAGTAAGTGAACATTTTTCTTTTTTCTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGAGCCTTGCGCTTGCTAGGCAAGTGCTCTACCACTGAGCTAAATCCCCACCCCCGTAAGTGAACATTTAATCTTTAAACATGCTTCGTTTTTTAAATCATTATTGTTTGTTTTGTTTTGTTTGGGGATAGTTGTTCTACCTAGCTTCGGCTGGTTAAACATATGATCTTCTCGCCTTAGCTTCCAGTGTGCTTGGATTAGCAGGTGTGCAGCACCACACCTGGTGGTTTGATCTTTTAAATGTACATAATGCCAAAGTTAGCAGAATTAGTATAATGTGTAGTAATATAGTGTGTGTGATATAAAATTATTTTGTGTGTTAATGCAGGTACTATGGGTAGATATTATCTGAGAGCTTCTCTATCTCTTATTTTCAG
Seq C2 exon
GTTGGCTCGAAAACAGAAGTTGCTGAGTGCAAGGAAAAGTTTGCTTCCTCTAAAGACCCCACCATCAGCCAGACTTTCATGCTGGACAGGATGTTCAACCCTGAGGGGAAGGCATTGCCCCCAATGCGGGGTTTCAAATACACTAGCTGGTCTCCCATGGGTTGTGATGCAAATGGCAGGTGCCTCTTGGCAGCGCTGACCATGGACAATCGCCTGACCGTGCAGGTAAACCTCAACAGACTCCAATGGGTTCAGCTGGTTGATCTGACTGAGATTTATGGAGACCGTCTTTATGAGACCAGTTATAGACTGTCTAAAAATGAGGCTCCTGAGGGAAACCTTGGGGATTTTGCTGAGTTTCAGAGGAGACACAGCATGCAGACCCCAGTCAGAATGGAATGGTCGAGTATCTGTACCACTCAGCAGGTCAAGCACAACAACGAGTGCCGGGATGTGAGCAGCGTGCTCCTGGCCGTCCTCTTTGAGAACGGGAATATAGCTGTGTGGCAGTTCCAGCTGCCGTTTGTGGGCAAGGAGTCCATCTCTTCGTGCAACACTATTGAGTCAGGAATCAGCTCCCCCAGTGTCTTGTTTTGGTGGGAATATGAGCACAGCAATAGGAAGATGAGTGGCCTTATTGTAGGCAGTGCTTTTGGACCCGTAAAAATTCTCCCTGTCAATCTCAAAGCAGTCAAAGGCTACTTTACTTTACGGCAGCCTGTTGTCTTGTGGAAAGAGATGGACAAGTTGCCTGTGCACAGCATCAAATGTGTGCCACTTTATCACCCTTACCAGAAGTGTAGCTGTAGCTTAGTGGTGGCCGCAAGAGGCTCCTATGTGTTCTGGTGTCTTCTTCTGATCTCCAAGGCGGGTCTGAATGTTCACAATTCCCACGTCACAGGCCTTCACTCGCTGCCCATCGTCTCCATTACCGCAGACAAGCAGAACGGAACCGTGTACACCTGCTCTAGTGACGGAAAGGTGAGGCAGTTGATTCCCATCTTCACAGATGTTGCATTAAAATTTGAACACCAGCTGATTAAGCTCTCAGATGTATTTGGCTCAGTGAGGACTCACGGCATTGCAGTGAGCCCCTGTGGTGCTTACCTGGCCATCATCACCACTGAGGGCATGGTCAATGGCCTCCATCCAGTGAACAAGAACTACCAGGTTCAGTTTGTTACTCTCAAGACCTTTGAAGAGGCAGCTGCTCAGCTCTTGGAGTCTTCAGTTCAGAATCTCTTTAAGCAGGTAGACTTGATTGACTTAGTCCGCTGGAAAATTTTAAAAGATAAACATATTCCTCAGTTTTTACATGAAGCTTTGGAAAAAAAGATTGAAAGCAGTGGGGTTACCTATTTTTGGCGTTTTAAGCTTTTCCTCCTAAGGATTTTGTATCAGTCAATGCAGAAATCCCCATCCGAGGCCTTATGGAAACCCACCCATGAGGACTCAAAAATCTTACTGGTTGACTCACCTGGGATGGGCGATGGTGAGGATGAGCAGCAAGAGGAAGGTACTTCCAAGCAGGGGACGAAGGCTGGCCTGCAGGAGAAGAGCAAAGAGGGTGGTGACACGGAGGAGACTCCTGAGGATTCACTCACTGCCGTGGGAGACACCGGAGGCCGTGAACCCATAGAGGAGAAGCTCCTTGAGATCCAAGGGAAGATTGAGGCTGTGGAGATGCACCTGACCAGGGAGCACATGAAGCGGGTCCTCGGAGAAGTGTACCTGCACACCTGGATCACGGAGAACACCAGCATCCCCACCAGAGGGCTCTGCAACTTTCTCATGTCTGATGAAGATTATGATGACAGAACAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054725:ENSRNOT00000088339:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.099
Domain overlap (PFAM):
C1:
PF126572=TFIIIC_delta=PU(29.9=50.4)
A:
NA
C2:
PF126572=TFIIIC_delta=PD(69.1=22.0)
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]