RnoINT0051438 @ rn6
Intron Retention
Gene
ENSRNOG00000022364 | Dsg4
Description
desmoglein 4 [Source:RGD Symbol;Acc:735015]
Coordinates
chr18:12074187-12076126:+
Coord C1 exon
chr18:12074187-12074321
Coord A exon
chr18:12074322-12075940
Coord C2 exon
chr18:12075941-12076126
Length
1619 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ACCTGCCCTATTTATTTCAGTAC
3' ss Score
7.74
Exon sequences
Seq C1 exon
CAACACAGTATGTACAATCTCCTGGTGAGGGGCTCAGATCGGGATGGAGCCACAGATGGGCTGTCCTCTGAATGTGACTGCAGAATCAAGATTTTGGATGTCAATGATAATTTCCCCATCTTGGAGAAAACCTCA
Seq A exon
GTAAGTCATTGTTCTAATGATCTTTCTCCCTTGTCAGTAGTCAGTTTGCCTTTATGCTTATGCAGAAGCCTGGCTGTTACACTGTGGGTGAACAGCTTTGTGATGTAAACTTACACTTCTTATGAAGAGTAGCACACCTACATGTTTGTCTTTTTATTGCTTAACATTTTATATTTTACTTTTAAAACATTTTATTTTTAACATCTTCTAAATTTTATTTTTATTTCTATATGCATTAGTGTTTTGCCTGTGTGTATGTCTGTGTGAGGACGTCAGATTCCCAGGAAGTGAAGTTACAGACAATTATAAGCTGCCATGTGGATGCTTGAAATTGAACCTTGGTCCTCTGGAAGAGCAGCCAGTGCTCTGAACTGCCAAGTCCTATCTTTTATTTACATTTATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTATGTGTCAGCACACACAAGCAATGGTGCACATGTAGAAATCAGAGGACAACTTGCAGGAATTGGTTCTCTTCTTATACCATGGAGGTCCCAAGGTTCAAACTCTGCTTATGTCTTGACAGGAAGTGCCTGAACCCCCTAGGTAATCTTTCCTGCTCCTATATACATATCTTTGACTCACTGTTCCAAGCAAGCCTCCTCTGGAAAACCAGCCTCCCCACATATTCTACTCACAGAAGTTGGGAAATTTGCTGCATAGGTGTTGGAAGTTGCTGAGTTAATTGTAATAGAGTCCCAGACACCCTCAACTCCCATTCTCACCTTCATCACAAAGTATCATAAAGCTGGGACTAGGAATGCAGTCCAGTTGGAAGAATGGTTGCCCAGCGTGCTTGGAGCCCTGGGTTTGATCCCTAGCAACAGTGCTGTGGAGCATACTTCTAATCACAGCTCTTGGGAGGTAAACGCAAGAGGACAAGTTCAACGTCATTCTCAGCTACATAACAAATTCAAGACTAGCTTGAGCTATGTGAGACCTTAAGTTAAAAAATATTACAAAATCCAAATAACAGAGCCAGGAATGACTTGTCACCTATTTTAGTCAAAATATTTTTCTCCTCCTCCCCCTCCTCCTCCCCCTTCTCCTCCTCTTCCTCCTCCTCCTCCACCTTCTCCTCCTTCTCCTCCTCTTCCTCCTCCTCCTCCCCCTCCCCCTCCCCTCTCCCCCTCTCCTCCCACTCCATTCTTCTCCCATGTTGTGTGTCACTACCTTCTGCTGCAACAGTGACATGACAAGCAGCTCCTGTGAAGAGTTTGTCGACCACAAAGTCCAATGTTTACTATTTAGCCATTAACAGATTATTTAAAACTAAGTCATTTTTTTAAAAGAGTAAAGTAGGTCAAATATAAATGTGAAGAAATGAAGCAGCAATGGAATATTGATTTCAGGTGTAGCATAGGAAAACAAATCTTACACTCATGTCATTCTTACATTCATGACTGAATAGATGCCATCTTAAAATGATACAAAAATCATTGGCATAGTTTGTTGTATTTTAAAGAATAATCATATGGTAGCAAATGTCTTTGTTCCTTTTCAAATCTGCACCACAAACCTGCCCTATTTATTTCAG
Seq C2 exon
TACTCAGCAAGTATTGAAGAAAACTGTTTGAGCTCAGAACTGATACGACTGCAAGCAATCGATCTCGATGAGGAAGGCACTGATAACTGGCTGGCCCAATACTCCATCCTCTCTGGCAATGATGGGAACTGGTTTGAAATCCAAACAGATCCAAAAACCAACGAAGGCATTTTGAAATTGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022364:ENSRNOT00000038450:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(31.3=68.9)
A:
NA
C2:
PF0002812=Cadherin=PU(58.7=98.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACAGTATGTACAATCTCCTGGTG
R:
TTGACCAATTTCAAAATGCCTTCGT
Band lengths:
318-1937
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]