RnoINT0005668 @ rn6
Intron Retention
Gene
ENSRNOG00000039050 | AABR07051878.1
Description
NA
Coordinates
chr3:25201596-25205050:-
Coord C1 exon
chr3:25204906-25205050
Coord A exon
chr3:25201737-25204905
Coord C2 exon
chr3:25201596-25201736
Length
3169 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
TTGTTCTCTTTCTCCTTCAGCCA
3' ss Score
10.27
Exon sequences
Seq C1 exon
AACAAAGACAATTAGAAGGCAGCCTATCATCAATGGAGGAATAAATGTAGAAATCGGCAATCCATCATACAATATGTATGAAGTGGATCACGACCACAGTGATGGCGGTCTTTTAGAACCGAGTTTTATGATAGATCCAGTAAAG
Seq A exon
GTAATATTTCTTGAATCATGAACTGAAAGTACTAATATTCCTAAGTCAAAACCATCACAGAATTCTGAATTTAATTATGCATTTGTAGTATCTATAATCATAGTTACAGACTTTAACATATATTGACTTATCTGATTGCTCCAAAAGAAAATACAGGGGACATTCTTTGGGAAATACTGTTAATGCTAAAATGCATTCATTAGTTTATAAAGATGTAATTTTATTTAGTATAATAACTTAAGAATTATGGGGTGCTAGCCTCTCTAATGTACAGCATAATGTTGAAAGAATGGATACTTCATTTTTCATTATGAAAAGTGCTCACTGGTTCAATTTCAAAGTAATTAACTTGATCACAATAGTTTTTTGTTGAAAAGGCAACAAAGCTGTGTCCTGAAGTTTCTTTTTAACTAAATCCCTTTTAAGAAAAAATCTTTTATGTAATATGATAAATTTATTTGTTTGAAACATTCAACCAGATCTGTAAGACAATTTTTAAAAATCTTATAATATCTTATTAAATGTTTCTGTGATGTGTAATTACAGTCTGCTCAAAATGAAGCCAAAAATTTCACATAAAATTATGTAAAAAGATCAAATAGTCTTTTATTATACTGAAGCCCATATAATTTAATGAAACTACTAAATAATATACAGCCACGAAAGTTACTAATGAAACTTGTCCAAATTGAACCTTGTAGTATTATCACAGTGACCAATCATATACTTAAGTGGTTTTCTCCAGTTTCTGTAGTTCCTCTTCAGGAAATCTACTTTGTAATCTATCATTTACCTCCCTAAGCCTTAAATTTGGAATCATAGTCACTATTAGGTAAATTAGCAATTACTATATGGATGAAGTATATACATATTAAAATCGATTTCACTAGTAATTCATTAGTCCAGTTTCATTGGGACTAATTTCACTTGTTATTAACCAGCAAATTCTTAATTGGACATTTTCATAAAATAGGTAATGCTAACATTGCTATAATAGAGTACACTTGACATTAAAAGATCATATTACTTGGCACACTTAGGAATTTATCTGTGAAAAAGAAAGCCATCTTAAAAAATTAGACTTATGGCATCTTTCCAGTTGTTCCAAGTGATAACAGTGTCTATCATGTAACCTGAACTAATGCAATTAACCCTTCAGCTTTTCATGAAAAGTTCTAAAATCTCCTTGTTTCTTTAGGTCTTAGCAATTGAATCAATACAATTACTTAAACTTAAAATAGAGATTATTGAAATATTTATATACTTACACTTCAAAAATTAAATCATGTTTCAGGTCCTTCAAATATGATTTTGATGTACTCATACGTAATCTCACTTAGCACTCAGTAAATGTACATTTACCAATTAGCTGACTGAATTGGTAAAATTTCTTAAGATATGCACTAACAGTTTATTCCTAGCTGGTTTGTAATCTTTATAGTATAACTCTGAATTGTTGTATAAAAAGTAACTACATTTACCCACCTTCAATTACATTGAAAGAATATATGTGCTTGGCACACTTGGAAATTTATCTATGAAACAGAAAGCTATCTTAAAAAACAGACATCTGACATCCTTCCAGCTCTTCTAAGGAAGATAATTTTATCCTAAAATTATAATGTGATGATCAAGTGTTATAAAAGGGTAGCTGAGTCTTCAAGAAAGACTCTTGTCTGAATTCTGAAACTTTTATGTCAAAAACTTAACTGGAGGATTTCCAGGGTTACACAGAAGTCAATGTTCTCCATGCAGAGCGTGTGTCAAGATCCAGGACATAAATAAGGTTCTCACCTCTGACATAAAGATCTCAAATTCTGTATGTTGACATAAGCCTCCTGATGTGGCCTAGAATTAAAGGCTATTTTATATTAATTGTGTGATTTAATTATATTTTGTTTCATTAAAAATGTTTCTGTGTCATTAGGTGAGATAAAATTTTCTGTTTGTGTACAGTCCAGGTACATAGGGGGAGGGCCCAGTGCTTTCAGGCTCCCACACACAGCACCGCCCATCTACCTAAACTCTGATTTGAAAGGACCACTAACTTCTGGGGTGAGAGAAACAGTCTATCTTTTCCTTCCCATCCCATTTCAAACCCTCACCATTCACAGAGCCATACTTGACTTGGACAGAACTTGCCCTTATCATGGTTGAAATTAACAAGAGTTTACAAGACAGCACTAAAGTCTCAGACTTCTTCAGTGTGTTATTTACCTACATATATGTGATGCAAAACTAAATTAAAATATACACAAAGTATATCATCATAATTTAGATAAATTAGAGAAGCTCTAATGAAATCTTAGTTATTTTTAAGGTTTAGATGCTGCGTTAGAAAAAAGTATTCTGTCCACAGTCACCAATCTCATTTTAGGCAGAACAGCAGATCATGGATGTACAGATTCTCCACACCTCTTGTTCCTGATCATCAAGTCCTTTTCATTCTCATTGTTTGTCCTAGAGTGTCTCCTTTGCATGCTATAAAGACTATATGTGTTCTTGCTGTAACAAAGGTTAAGATACTGCATGAAAAAGAAAAACACAAACAAAGAAACAAAGCTGAAATTCAAACAAAAATAAAAATGAAATGACACTTTCTTGTGTTAGGTTTCAGTTTCTTTAGTAAGGAATGTTGAATACCATTTACAACTGAAGGAACCTGCTTATGTTAGCCTTTATTGAGCTTCAAAATTAACTATGGCATAAATCCTCAGTTGTCTCTGAATTCAAAATTATTTGGAAGAATCCATATATATCTGATATATTTTGTTGATTTGGCTTCTTTTCATTCCCTAATGCTTAATTCACCTTGTAGAAATAGAAAATCAGACCAGTTAGATAATTGTTGTATTCATCTGTGGACTTCCACCAGGAGTCAGAGGTAAGGACAATGGGTGAAAGCCAAATATCCTTAAAACAGCTAGGTTTACCATTTTATACTAAAGCTATTGTATAAGTTTCACAGTTATACTGGCTGTTCCTTTTGTAGCAAAGCTTCTGTGTGGCCTCTAATCTACTGTAAAATATAGTTATGATTCTACATATACATGGACTAAAATCTGCGAAGAGAGAATTTAAATTACATGTTATCATTAAAAATAAATATCCTATAAATTAATTTTGTTAAGTTGATAGTAAATTTTTATTTGTTCTCTTTCTCCTTCAG
Seq C2 exon
CCAACAAATTATTCCAACCCAGTATATGCAAAATTGTATATGGATGGACAGAACTGTCGAAACTCCTTAGGAAGTGTGGATGAACGGAAAGAACTGCTTCCAAAGAAAATTGAAATTGGCATCAGAGAGACAGTGGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039050:ENSRNOT00000040023:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF151021=TMEM154=PD(14.3=20.4),PF118573=DUF3377=PD(16.7=16.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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]