RnoINT0083768 @ rn6
Intron Retention
Gene
ENSRNOG00000022737 | LOC691970
Description
similar to deleted in malignant brain tumors 1 isoform c precursor [Source:RGD Symbol;Acc:1593322]
Coordinates
chr1:201794708-201796723:+
Coord C1 exon
chr1:201794708-201794898
Coord A exon
chr1:201794899-201796693
Coord C2 exon
chr1:201796694-201796723
Length
1795 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TAGTTTTCTTGTTTTTGCAGAAG
3' ss Score
7.67
Exon sequences
Seq C1 exon
TCTCGACTGCACCAATGAGTATTTTGAAATCCTGGATGGCCCTCCATCCTCTGTGAAGTCCCTGGGGAAACCCTGCCGTGGGTTGCACGTCACCTTTGCATCTCACTCCAACTCGATGACCCTAGTGTACTTCCGAGGAGAGAACAACATTGGGAAAAACTTCATGGCTTATTATTATTTTGAAGCTAAAG
Seq A exon
GTAAGAAATGACACAGAGTCACAGCTTTGCACTTTCCAGTGATGTTCCATCATTTGTTCTGTGACCTTGGGCAAGATGGGGAATCTGTCATGAGGATTCATACAACAGAAACTGGGCCATTAGGGACTCATTTCCAATAGTATTCTCTGACTCTTTTCTTGTATGGGTGTTTTAGATAGTACAGAGAAAGTGAACCTGTTCCCTCTAGGACCTCTCTCAGGCTTGTGCACACCAATAAGGAGGTCAAGATTAACATATGAGACAAAGTTGGAGGGTCAATGGAATATACTAGTTTAAAGCACACCAATAAAATAGTGTGTGTGCTAGAATGTGCTGCACAGACACACATGTTCACATCAAAAAGGAAAAATAGAAAAGACAGGACCACTGTAGGCTGCAAACACCAGGGCAGATCCATTTTGAATTTACCTAATGGTAGGCTGTTCATAGATAAACTGCACAAGAACTTATGAGGAGTAAGATTAGTGTTGGATCATTTACCTAATGGTAGGCTGTTCATAGATAAACTGCACAAGAACTTATGAGGAGTAAGATTAGTGTTGGATCATTGATAAGTGGCTATTAGCCCAAATGCTTGAATTACCCTAGATGCACAGAACACATGAAACTCAAGAAGGATGACCAAAATGTGAATGCTTCACTCCTTCTTTAAAAGGGGAACAAGAATACCCTTGGGAGGGGATAGGGAGGCAAAGTTTAGAACAGAGGCAGAAGGAACACCCATTCAGAGCCTGCCCCACATGTGGCCCATACATATACAGCCACCCAATTAGACAAGATGGATGAAGCAAAGAAGTGCAGGCCAACAGGAACCAGATGTAGATCTCTCCTGAGAGACACAACCAGAATACAGCAAATACATAGGCGAATGCCAGCAGCAAACCACTGACCTGAGAACGGGACCTCAGTTGAAGGAATCAGAGAAAGAACTGGAAGAGCTTGAAGGGGCTCGAGACCCCATATGAACAACAATGCCAACCAACCAGAGCTTCCAGGGACTAAGCCACTACCCAAAGACTATACATGGACTGACCCTGGGCTCCAACTGCATAGGTAGCAATGAATATCCTAGTAAGAGCACCAGTGGAAGGGGAAGCCCTTGGTCCTGCCAAGACTGAATCCCCAGTGAACGTGATCGTTGGGGGGAGGGCGTTAATGGGGGGAGGATGGGAGGGGAACAGCCATATAGAAGGGGAGGGAGAGAGGTTAGGGGGATGTTGGCCCAGAAACTGGGAAGGGGAATAACAATCGAAATGTAAATAAGAAATACTCAAGTTAATAAAGATGGAAAAAAGATTAGTGTTGGAAATGAGATGCAGTGCATGCTGGGAAGGCAGATGCTAAGCTGAGGGTCTCTGTTAAAGCACAGTGTATATGTTAGTAAGATCAATTACAACAACTATGAGCCAAATATTCACAATAACACCTGATGTTTACTGCTCATCTATCTCCTATCATGGATAAGCTCCTTGTGTATGTTATGCTTATACAAACCCATGTATCATTCTTTTTTACAGAGAGGAAATGGAGGCCTCAGAGGTTCACTAATTACCTGGGGTTCTACACTATTCTCTACCTATAAATACCAGTCAGGCCTCATATCTGTTTTGTCTAAGTTGGTGTTAAGAACACTCCCTGGGGCCTTTAGTAAATGATGAGCAAACTCGCCAAGCAAGCTGTAAGACAGAGGAGATGCTCTGAACCAAACAATGGGTCAAATGTCTCCATAATTGGGATCATATATCTGTTGATTGTAGTTTTCTTGTTTTTGCAG
Seq C2 exon
AAGTAACAACGAAGACCCCGTATCTGATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022737:ENSRNOT00000039130:10
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=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(55.8=89.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCGACTGCACCAATGAGTA
R:
TCAGATACGGGGTCTTCGTTGT
Band lengths:
218-2013
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]