RnoINT0125468 @ rn6
Intron Retention
Gene
ENSRNOG00000009196 | Rc3h2
Description
ring finger and CCCH-type domains 2 [Source:RGD Symbol;Acc:1304833]
Coordinates
chr3:21653559-21658651:-
Coord C1 exon
chr3:21658476-21658651
Coord A exon
chr3:21653760-21658475
Coord C2 exon
chr3:21653559-21653759
Length
4716 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTTCTTCTTCCCATTTTTAGGTT
3' ss Score
13.48
Exon sequences
Seq C1 exon
CTATGCAAGAAGAAGCCTTGAAGTTGGTATTGCTGGCATTAGAAGATGGTTCTGCTCTCTCTAGGAAAGTTCTGGTACTTTTTGTTGTGCAAAGACTAGAACCAAGATTTCCTCAGGCATCAAAAACAAGTATTGGCCATGTTGTGCAGCTACTGTACCGAGCTTCTTGTTTTAAG
Seq A exon
GTAAGCACTATACAACTATCTGAAGACTACAGGTTTATACCTGAGATGGAGGCTTCTAAGAATCCATGTTACCAGTCTAGTGACCTTCAGAAATAGACTATTTCTTAAGAAGAAATATTGAATTGAACATATGTAAAATCCTAACTTTAGATTCTTAGAGGAACTTGTAAAAATGAACTGAGACACCTCTCTTCTTTATATCCGTTGCTTTAACAAAGCACATTGTAGGCTTTGCAAGAAGAGGAAGTATTTGAAATTCATTGTTTTCTTTGTCTTTCATGTACTGATGAAAGTCTTCAATGTAAAATTAGTCCACAGAAAATTCAAAAGTTGAGAAGATTGGCATGCTCTATGGTATTTTGTTTGATGGCATGTGAAAACTATTTTAAAATGGAATTTTAGGTCACTGATAGATGAGGAGCTACCTAAATCCCTGTTTTCCATCTGTTATCAGTTGTGGAAAACATTTACTCTATCAGGGGCTTCCACCCTGTCTTTGATTATTCAGTTCCCTGAGAAAAGACATACAACTTTTAATATTATAATAAGCCTTAAAAGGACTAGAGAGATGGCTCAGGGCTTAAGACAGTTAAGACAGGACTGACAATTCCCCCAGAGGTCCTGCGATCAATTCCCAGCAACTACCTAGTGGCTCAAAGCCATCTGTAATGGGTTCCGATGCCCTCTTCTTGTGTGTCTGAAGACAGCTATGCATATATTAGAAAGAAAAAAGAATAAGCACTAGAGCTGGGCAGACATCTACCCTCTAAGACATTAAAATCTATTTCCCCATCAATAACTCCAAATTATAATTTGCCATGTTCCATCTGGGCTGCTGTTAACTTCAGTTGGCTAGCCCTTGTGGCCATGACTCACGTTACCCATGGTGTGAAAACACCTTCTCTCTATCCCTCCTGTGGTTCTCAGACCCCAAGCCTGCCAGTGTCTCTTGTGCACAACTCTTGACTGTTGGAATCTTTATTTAACCACAGTTGTAGATTAAGAAGCAAGGTCACATTGTATGTGTGAATTCTTTGGTCCCCATGAGCAGCCAGGCCTTGGGGGCCAGTATTTAGCTTTACATGGGTAGTGAAAGAGCAAACCTGAACAGTTATTCAAGTGTGAGTTGTTAGCTCACACCTCACTGCTTGTGTGACAGTAAATCACAAGTGTCAACCTTCCTTTGCTAATTTTAAGGCTCTAAGATTTAAAAAGTTCCTTTGAAAGTATTCTACTTAAGAGAACTGGTGATTGACGATGGAAGTATGTTCAGATGGATTTATTTACCTTTGCTAATGAAGTTTGCATACTTTACCTGATAGTTGTGGTACTTGAGTTCATGTCCTTAAAGGAGGTAATGATTTAAGTGATGCTCTGGTTCTTCAAACATCATGTTTTTACACAAAGTAGCCAAGTTATAGAGATCATTGTTATTCTCACTTGACTGACTAGGCTTTCCCATTATTTTTCACTGAAATATCCAACCCTTTTTTTTCTCTTGGTATCAAACTACTCTTTGGTTTATGATTGTTACATATTAATAGTTCCCAGTGTTTACATCACACTAGGTTACAATGTGTTTCAATTTTTTTTCATCTCATCCTTACTGTCATACAATTTAAGATGCTAAAGATAGGCAAACTTAAGGGCCAAAAGATACTACTTAAATGACATTTAATTTTAGGAAACTAATTTCAGTCCAGCCATCACTGTCCATTGTCCTTCAATCACCTTTACCAACTTAGCAACTAGGTTTTTGTGCCTGTATGATCTTTCCTCGGGATTAAGATTGCTATAATCATGATCAAATACAGCAGATCATCAGGCAATTTCTTTTTTTTTTTTTTTTCCGTGGCTGGGGACCGAACCCAGGACCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCCAAATCCCCAACCCCATCAGGCAATTTCTAATAAGAATTGTAATACATGGCAGTGAAATAACTTTGTGGATAAAGATGCTCTCTACTGAGCCTGTTGACAAGTTTGAAACCTGAATCCCACATGTTAGAAGGAGAGTGCTGATGACTGTTACTTTTCCTCTCACGTCCACACATATGCATGGCACGTACATGCCCACATATATACATACCAAATAAATAATATTCATATATGGATAGATCCTTTTCTGTACAGAATGTTTGCTTACTGAACATGGAATTAGAACAAGGATAATTAATGATTCTCATGCATAGTGTAGTGGTTCCCAACTGAAAGCACAGCATTCGAGGCATCTATATGTTATGTTTTTGGGCTCTAATACCAGGAATCCTTATTCAGTAGATTTGAGAGTATATCTTTCAAAGCTTCATAAATAGGTCTGATTGTTTTGTGTTGTTTTTCAAGACAGGTTTTCTTATATCCTAGATTGACCTTGACCTTGTGATGTAGCTGAGGATGACTGTAAACTTTTGATCCTCTTCTTCTTACCTCCCAACTTCTGAGATGATGGTGCGCATCACTGCAGTGTCTAGTTTTTATGTGGTGCTGGAGATCAAACTCCAGCTTTGTTCATGCTAGGGAAGCCCTCCACCAACTCAGCTACAACTTTAGCCCTTCACACAGGATCTCTGTGCATTATTAGTACTTTAAATGGCTCAGGCTCTGTTAGTTACCCAAGTCTTCAACTGCTTAGGTGCTTTGGCTACCCATGGGGCACAATGTATACACTGTACACTATATGGTGGTTAGGTGTGTGCTATGATAGTTTTTCCCCCTCCTATTTAAGTTAATAATTGATCCTTTTATTTTCTGATGTTCTCATAAAGTAGGTTATTGAAGAATACCGACTTTCTAAGTTACGTCCACCACCACCCCATACACATTCATATTAAAGTTTAAGATAGTATTGATTGGGGCTGGTGTGATAAATGGCTCAGTGGTTAAGAATACTTGCTGCTCTTGAAGAAGACCTGGGTTTGGTTTTCAGTATCTATATGGTGGTTCCAGGGAATCTGACACCCTTTTCTGGCCTCCATGGATACAAAGCACACCTGTAATGTACATGTATACATGCAGGTGAATACTCATTCACATAAAATAAACAAAAGAATATATTAATTACAACGTTGAGTATCTCAAACACATACCTATTTATAGATTTCCAAAGAGTTCATGGCCTATTCTGATAGATTTTTCTGTCTCATGTTATTGGGGTATATTGCCACTGTCTGATATGCCAGCAGCAGAAATAAAAATAGTTACTAAAGCAGGACATAGAAGCCTATACCCCATATTCCTAGCATCTGGGCGGTTCAGACAAGGGTATTTCTGCAGTTTTGAGTCTGTGATTGAGACCCGCTCAGTACACAGAACCACTAAGGTAGCTGGATGGTTTTGTTTTGTTTTGTTTTTCTTTTACCAATTAGGAAAACAAAATTGTGCTTGTTTGTGACAGGATCTTGTTATATAACACAAGCCAAACTTTGTGCTCATGATTCTTCTGTTTCAGCCTCTTGAATGCTTTTTATAAATGATTTGTCCAGTTTGAATCTCAAAATTTGGTGTGGTTTTATATGTACTTTGAGTCTTAAGTCTCAGAGCTCATTCAGTGATGGATGGAAGACAAAGCAAATAAGATGGAAGATGAGTATTCACTTCTAAAGTTGTCCTCTTGACCTACCCACGGTCGTCACACACAAAGACTTAGTCAGAATTAAAAGAACACTTACTTCAGATAGCACTGTTCTAGGCACACAGTTCTCAACCTTAGAAATAGTATTCTACTTTCTGAAACTGCAATATCTCTCTCATTTCTCAAAGAACCACAGTAAATACTGCTCCTACTAATCTACTTCAGCCCTCTTAGAAAGATGTGATATACTCAGCCTGTGCTTCTCCCCAAACAAGCGGTACTTTTTCACTAAAACAGTTTTTTTTAAAAAAAAAAAAGAAAGAAAAAACTTTCTAAGCAAGGAAAATGATGTTTTAGAGACAGGTACCTAATAATAGTGCTTCTGTAAAAACTCTCAGTGACTTTTCATTCCCTTCAGGATTTACTATCTAATTTACCATAGTATTTAAGAGCATTTGTGAGTCTTCTTATATATATTATAACTTTTAACTCTGTCCTCTGTTCATTCATGGTAGTTGGTTGGTTGATTTGTTTGTTTGTTTAGTTGGTTGGTGTTTTGTTATTTTTCCCCATCCTTTAGACAGGGTTTCTCTGTGTAGCTCTGGCTGTCCTGGAACTCACTGTGTAGAATTGCTTTGCCTCTGCCTCCTCAGTGGAGTGCTGGGATCAAAGGCATATTTTACCACTGCCTGGCATTACCACTTGGTTTTTAGAATTTGCTTTTCCCCTTTTTCCTAAAGAAATTCTATTTTTAGAGATGTAGGCCACATAGTCTTCAGCTAAGGAAAACATTTTCTGAAAAATTTCTGTTTACTTGTCATATTTAATTGCCTTTTGTTTATGTTACCATAGAGCCTATAACACCACCCTTATTGTAATTTTTTGTTTCTAAGTCTTTCTTTCCTGCCAAATGCTGATGAACTCAAGAAAAGGATTGCGTATGTAATTATATAGTTTCTGTTTTGTTGTGAAAAGGAGTTTGTATTGGCATTTTCTACTTTTTGTGGTATCTGGTATGTCCCAATCCCCACACCCAAAGTAAATGAACTGGATAAGAGGAAAAAGCAGACCAATTCTAATGAGTTTGATTTTTTTTTTCTTCTTCCCATTTTTAG
Seq C2 exon
GTTACTAAAAGGGATGAAGACTCTTCCCTGATGCAGCTGAAGGAGGAATTTCGGAGTTATGAGGCACTACGCAGAGAACATGATGCCCAAATTGTTCATATTGCCATGGAAGCAGGACTCCGTATTTCACCTGAGCAGTGGTCTTCACTGCTATATGGGGACTTGGCTCATAAATCACACATGCAGTCTATCATTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009196:ENSRNOT00000012354:4
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=0.015
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0028516=Citrate_synt=PU(25.5=58.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]