RnoINT0157908 @ rn6
Intron Retention
Gene
ENSRNOG00000039777 | Ttf1
Description
transcription termination factor 1 [Source:RGD Symbol;Acc:1565673]
Coordinates
chr3:7656842-7657867:+
Coord C1 exon
chr3:7656842-7656927
Coord A exon
chr3:7656928-7657689
Coord C2 exon
chr3:7657690-7657867
Length
762 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CAAAATGACCTTTTCTGTAGAAA
3' ss Score
5.4
Exon sequences
Seq C1 exon
GGATGTCCCTCCACCTTTCGTTCAGGCAAAATTTTATAAGCTGAAAGCTGCCTGTGTTCCCTTTTGGCAGAAAAAGACTTTTCCAG
Seq A exon
GTCAGTATGCAAACCCTTGTCTAGTTAAGAGTAGTTAAGTCCCAGTGAGGTGATCCCAGCACTGAGGAGGTGGGGTATCAGAATCTGTGTGGTAGACGCCAGCCTCTGCTATACAGCGTCACCTGAGCATTATGAGAACCTGTCTCCAGAGTCTCCACCCCTTCAGGCTAAGTCCAGGGCTCTGACAGGTTCTCAGGGCAGTGTGCTGCGCCCTACTGCCTCATAAAGCCAGTCAGGGACGGACCCTGTCCTGAAGAGTGGCCTAAAACACTGTTCTGTACTGTGCAGACATCACTACCCAGCTCACCTCCTTGTCAAGTCCAGGACTAATACTGTCAGGCCTCAGTGTCCTTATTGCAAAGGCCGATTAGAGGGAGCTGGGGAATTGTCTCAGTAAGTGTTTACTGTGCAACTGTGGGTGACAAAGACAGGACTCAGCCAGGCCTGCAAAGCTACCCCGTCTGGAGAAATGTGGTAGAGAGCAATTGAGGAAGCACTTGACATCAGCCTCTGGACTCCACACAGATGTCACCCGTACCATGATGATGGTGGTGGCGGTGGTGGTGGTGGTGGCGGTGGTGGTGGTGAAGAAGAAGAAATAATGTCTGCCTTGTAGGGTTTTTTCAAAGACTGTGTAAGAGACTGTGCACCAGATAAACTGGCTTTTCCGTGTGCTAATAGGTGTGGGCATTATCATTAAGGCTCTGCGACCTTTGACCTTAGAGGCTTATACAGATATGTCCAAAATGACCTTTTCTGTAG
Seq C2 exon
AAATCATTGACTACTTATATGAGAACAGTCTGCCTTTGCTGAAGGAAAAGTTAGCCAAGAAGATGAAGAAAAAAGACAGCCAGATCCAGAAGCCCACGGCTCCCAAACAAAACTTCCTCTTCAAAGACATCTTCCATTGCGATGATGACAGCGATGAAGGGGGCTTAGAGGAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039777:ENSRNOT00000061029:10
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=0.233
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGTCCCTCCACCTTTCGTTCA
R:
TCCTCTAAGCCCCCTTCATCG
Band lengths:
255-1017
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]