RnoINT0126172 @ rn6
Intron Retention
Gene
ENSRNOG00000027867 | Rexo4
Description
REX4 homolog, 3'-5' exonuclease [Source:RGD Symbol;Acc:1306220]
Coordinates
chr3:5508757-5510908:-
Coord C1 exon
chr3:5510634-5510908
Coord A exon
chr3:5509098-5510633
Coord C2 exon
chr3:5508757-5509097
Length
1536 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TTTAATTTTGGTTCCATTAGCTG
3' ss Score
4.57
Exon sequences
Seq C1 exon
CACGCTTGCCCCCTGGGTATGCTTCCGCGGTCACCAGAGTCTCTTCCTTGCTGGCTCGGGCTGCGGAGAGCGAGAAGATGAAGACGAAGGCCACCGCGCCGGTGCCCCAACCTGGGCCTATCCGGAAGCTCGTTAGGAAGAAAGCCAAGAAGAAGTTCAAGAAGAGCAAAGCGCTGGGAGGAAGTGGGACTCCGGGAAGCCGTCCCGCAACTGTGGCAAGCCGACCGCCGAAGGCCCCAGAGAACTTTTCTCAAAATTGGAAGGCGCTGCAAGAG
Seq A exon
GTGAGACTGGCGACAGGCCACCTTCGTTTAGACCCCGAAGGAGGAAGGGATGTTGTTCTCTGCTTCACTCAAATTCTTTTTCTCAATCGTAAATCACATATCTAGGTTGCCACACTGTCAACGTCTTAAACTATGTTCCAGAACTCTGACCCAGACTGCTCTGGAACTAGTGTAGCTCGGTGTATACCCACGCTAGTGGTTGTCCTCCTACATTAGGTAGTCTCCCCAATCCCGAGCCACTATACCCACTCTCACTCGTAAATTCTTTTTTTTTTTTTCTTTTTTCTTTTTTCTTCTTTTCGGAGCTGGGAACCGAACCCAGGGCCTTGCGCTTTCTAGGCAAGCGCTCTACCACAGAGCTAAATCCCCAACCCCTCACTCGTAAATTCTTACATACTAGTTAGCTGCTTTTTTTTTTTTAAGATTTATTTATTTATTTAGTCTATATAAGTACACCGTAGCTGTCTTCAGACACACCAGAAGAGGGCATTAGATCTCATTTACAGATGGTTGTGAGCCACCATGTGGTGCTGGGGCTTGAACTCAGTACCTATGGAAGAGCAGTCGGTGCTCTTAACAGCCGAGCTGTCTTTCCAGCCCTAGTTAGCAGTTTTTACTGTCCTTGTTTCTTAGATGAGGAAATTGTGACACAGAGCTTAAGGGGTCTGGGTTAAAGGAAGGTCACACAGCATGTAAACAGCAGAACTGGGATATTGAGCATGCATTCAGTCTGTTGACTTCTAGGTAGTCTTTTAGCATGTATGTCATAGAGCGTCAGTTAATAAGAAAGACAGTAAGGAATTTCCTGAGCTCCACAACAACACTCCACCTTGTTCCTTAGTGTGGATTTTCCTATCTGGACACCCAGAACCAGCCAAACCCTGTGGACAGTCTGGGCTCTGGACATGGTTCTTGTTCTTTCTCCCAAGAAAGTAAAGTAATATTAAATGTGCATGGAGTACATATTTACTATAGGAACATGGAGCTGGCTCTGGCTTCTACAAGAATCTAAATCCTTCAGGTCTTTACTTAGGGGAGGAAGTAGATACTTGCCACAACAGCTCTCAGCTGGTTGCTGTCTTGCTGTGGTCTTTACTGGAGATTTGAATGCAAGGAAGAAATTGTTATCCTGGACCTCTTCTGTACCTGGATCAACCATGACTGGTTTCACAGGACTTCTTTCTTGCCATTGAGCACCCTTCTCCGGGTCTTCCTCAGGCTCGGAGCTCTAGCCAGCCTCCAGAGATAGTATTAGGGAAGTGACCATTGTGGCCCACAATGTTGACCATGGAAGGCACTCTAAATGCAACTCCAAATAAAGAAGTGAGAACCACCCTTAGTGATGGTGATGGGAAAAGTGTGGACGGTAGATACACACGCACACATGGTTTTCTTCAGTCTGTGGTTTGGTTTGTCCGTGTGGACGGTAGATACACATGCACACAGCTTTCTTCAGTCTGTGGTACGTCAGTTCAAAATTTAAATGTGGCTTTTAAAGTAATAAATGTGGCTTATATTTAATTTTGGTTCCATTAG
Seq C2 exon
CTGCTGAAACGAAAGTCAGAGGCCCCAGAAAAACCTCGTATCTCTCAACTGGATGACAAAATACATCACCAAATAATCCAGAAGAACAGAAAAAAAACCTCAGATAAATCAAAGGGAGACAAGAGGACAGAAGACGACAAGCCCACTAGGGATTCTGTTACATCTGCACCTAAGAAGGTCAGGAAGACACCAGTACCTCCCACAAATGCCTCTGGAACAGAGCAGAAGAAAGGAGCCGAGAAGAGGACACGCAGTGACCTCTCTTCTCACCAAGGGGACATCAAGCATAAGGGGAAAGCTAAGGAGGCAGCTGTCATCCTGAGCCAGCCCACGCCCACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027867:ENSRNOT00000042289:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.965
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAAAATTGGAAGGCGCTGC
R:
GATGACAGCTGCCTCCTTAGC
Band lengths:
344-1880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]