RnoINT0083776 @ rn6
Intron Retention
Gene
ENSRNOG00000022737 | LOC691970
Description
similar to deleted in malignant brain tumors 1 isoform c precursor [Source:RGD Symbol;Acc:1593322]
Coordinates
chr1:201811097-201813184:+
Coord C1 exon
chr1:201811097-201811314
Coord A exon
chr1:201811315-201812866
Coord C2 exon
chr1:201812867-201813184
Length
1552 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TGGAATCTCCCTCTGTTTAGAAG
3' ss Score
6.03
Exon sequences
Seq C1 exon
CCTGGAAGATATCCTTGGATGTCCCTATGACTCAGTTGAGATCTTCGATGGCCCCAGAATTCCATCACTCTCCATGGGGAAGTTCTGTGCCCCATCAGCTGTGGTATTTTTCTCCTCCTCAGACATCTTGACAGTTGTGTTCCGCAGTGATTACATGACAACAAACACTGGCTTTTATGCTTTCTTCAATGCAATTCCACAAGACGGAAAGGAGTCAG
Seq A exon
GTAGGAAGCTTCAGGTAACCTTGGGGAGATAATAGAGAACAATTTCTAACTTGACACTCCTATACACAAAAGCCTGGTTCAGTTTTAACCCACACCCCCAAACACACACACACACACACACACACACACACACACACACACACACACACACACCACCTGCTAGAAGTGGTAGCATCACAAAGAGGTAGATTTTCTCACCATGAGGGTCAGGTAGCAAGCAACAGTCAGATGGTAATGTACATCCTGTACAATGGCTACAAAGGGCAGTAATAAAAGGACAGACATCTTCCATAGAAAACCATGCTCTATGAAGGGTCTTCAGGCTGTTGTAGCAAGCTTTAGGAACTGTCCGGAGTTCTGAAACGTGGAAGTCCAACACTCCTCGAGATTTTACCCCCCTTACCTGTTGACCCAACTCACAAGTAGCATGCCTTAAACCATAGGTGCGCCCTGACTGGAGGCCTGGGTACTCCTGTTGGCCTTGACCTAGTCACTGCAGAACTAGATTCCTTGTTCCCTGCAAGGAACACTGTGTGTCAGTTGTGAGATTGCTGGTGTTTAGGTCCCCTCTGAAGGAACTCCAATAATTCTTCGAGAATGCCAGAAAACCAGATAAGTAGAAGTTTGGGTTTGTTTGTCTCTGAGGAAAGAAATTTCTATCTGGGTATGCTCTGTGTATCTTATATGTGTGTTTTACCTGATTCATCCCAAGAACCTCTACGATAAACACTTGATAGAAGCCTGACTTTACAAATGAGGAAACAGCTCACAGAGGTGAAGTAATTGTCATGTAGGGGCAATAGAATGAGATTCAACCCCAGTTTCTGTCGTACTCTATAACCCTTGGGCTTCATATGGAATCAAGACAACCTCAAGGGTTTGCACTTGTGATGACCTTGGCCATGGCACAGCCACTAAGAATCTCTTCCTTCCTTCCTTCCATTCTCCCTCTCTTCCTTCCTTCTATTTTTTTATTTGGGGGATTATAATACAATCATAACATTTCTCCCTTTCCTTTCCTCCCTCCAAACTCTTCTGTATAACCACCCACCCCACTGCCCTCCCCGCAATTCCCCATCACACACTTCCTTTCCCCACTCCTCTTCCCCTTCTCCTCTGAGAGGGTAGAGGCTCCATGGGTACCCCCCACTCTCACACATTAAGTCTCTGCAGTACTAGGTACATTCTCTCCCACTGAGGGCAGACAAGGCAGCCCCTTTAAGGGAACAGGATCCACATGCAGTCAACAGCTTTAGGGACACTCCTGCACCAGTTGTTGGGTGACCCACATGAAGATTGAGCTGCACATCTGCTACATATGTATAAGGGGCTTAGTTCCAGGCCATGTGTGCTCTTTGGTTGGTGGTTTAGTCTCTGAAAGTCTTCAAGGGGTCAGATTAGTTGACTCTGTTGGTCTTCTTGTGGAGATCCTATCCCCTTTGGGGCCCTCACTCCTTCCCCTAACTCTTCCATAAGAGTCCCTGAACTCTATCCAATGTCACTTTCTACATAAAACTCCTCATGCTCAAAACTGGAATCTCCCTCTGTTTAG
Seq C2 exon
AAGAAAGACCAGTGCTGCGGTTGGCAGGCAGCTCTGGACAGTGCTCAGGACGAGTGGAGATCCTCCATCAGGGGGCCTGGGGCACCGTGTGTGATGACCTGTGGGACCTGAATGAAGCTGAGGTTGTATGCAGACAGCTGGGGTGTGGCCATGCCATTGCTGCTCCTGGAAGTGCCTACTTTGGTCCAGGCTCTGGAAACATCCTTCTGGACAACATTCAGTGCTCAGGAAAGGAAAACCACTTTGGCCAGTGTTCCAGCTCTGCCTGGTTAGACCACAATTGTGGCCACCATGAGGATGCTGGAGTTATCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022737:ENSRNOT00000039130:18
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=0.037
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(56.9=83.8)
A:
NA
C2:
PF0053013=SRCR=WD(100=91.6)
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
Cow
(bosTau6)
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:
CTTCGATGGCCCCAGAATTCC
R:
AAGTAGGCACTTCCAGGAGCA
Band lengths:
357-1909
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]