Special

RnoINT0123948 @ rn6

Intron Retention

Gene
Description
Ral GEF with PH domain and SH3 binding motif 1 [Source:RGD Symbol;Acc:2319500]
Coordinates
chr3:12200067-12202258:-
Coord C1 exon
chr3:12202101-12202258
Coord A exon
chr3:12200119-12202100
Coord C2 exon
chr3:12200067-12200118
Length
1982 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
GATCTGTGTTCCTTTTCCAGGCA
3' ss Score
11
Exon sequences
Seq C1 exon
TCTGATGTGTCAGTTGAGTGTAGTTGACAGTAAGAGTGCCACATTCCCATCGGAGAAGGCCAGGCATCTGCTGGACGACAGTGTCCTAGAGTCCCGCAGCCCCCGCAGGGGCCTCACCCACACCTCCTCTACCGCCATCACCAACGGACTCTCCCTAG
Seq A exon
GTAAGCAGCTCTGGCCTGTGCACACAGGCAGGGGCAGCAGGCCCAGTTTGTGCTCCGTGTCTGTCTCTGTGTCACTGTACTGTGCCCAGTGGCCCCTCACCCTTAAAGAATGGCTCCCTACAAGAGTCTTCTGTTGCAGGAAGAGCCCAGGGTTGGCCTTCTCCTGATGCTCCCCATATGGACAGTCAGGTTGAAGAAGGAGGCTAGACTTGAGTCCACTGCAACCCCCTAAGGCCAGCTGCTACCTTAGTGGCATTTATGTCCAAGCCTTGCTAGGAGCAGTAGGTGGGTGGCCCATTGCTTCCTGCTGTGTGCTTATCTTTACCCAGAGAAGGCAGAAGGGAAGATGAAGACGTGAGCCTTAGGGATGGCATTACCCTGTGGACAGTGGCAGGAAGAGCCTGTCCCATGGAGTTAGAGACAGGGCTGCTGTTGCCAGAAGAGAAATATTGATATTAGGGCTGAGACTAACATGGAACTGCATTCAGAGACCTCGGGTCACCTATGGCAAGTGACACTATCCTATGATTACCATCACCAGCCCAGTGCTCTCTTGATGGCCCGTGCCTTCCAGTGTGCCTGTGTGTTTGCCTGCCTTACATAGCAGAGTCCTCCTAGCAATGGTGGTGAGCTGGTGTTTGATCTGGTGAAGGCAGCGGGGCAGAGGGCCGGGAGCTTGGAGAAACAGGCGCAGGAACACCGGGTGGGCATCTCATGCCACATGTCCCTGTTTTGGGGGTCAGGAGCAATTTTAGCACAGAGCAGCTGCCTCCTGGAAATGTTATGACAAGTCTTGTATCTGCCTTCTGTCTTCAGAAGAGGTCATCCTATTTGGACACTAAAGTGTGGGGCGCGTAGGAGACTGCATCTTAGGCGCGTAGGTATGGGCTGAAAAGTGCTTGGGGCTCCTGAGCTGGGGAAGTAATGAGGCTGCTTCCTGAGCCTACACTGTGCCCTTGGGCATTGACCCCTCAGCCTGGCAGGGTCATTCATGGCCCTCATCTTAGAGTATAGGACGGGACCTGGCTTCTTATGAGGCTCCGTGAATGCACAGTAGAGCTCCAAGCAGCTATTTGACATCCAGGAAACTCTGAGCTGTGCCTGAGTCTGGGCTGCCTTTCCTGAGAGCGAGTCAGGTGCTGTGCTGTCCAGCATCCAGGGGAGATCACAAGATTGTTTGGCTCCGGCTCATCAAGTCAGGGAACTCAAGCCATTTTCTGCTGGAGCTGAAAGCTCTGAGAAAGCGGCAGAGTGTGTGCCCTGGTGGTGCTATCCTCCCAACCCCTCCCTGTCCTCCAACCCGTACAGCAGGGAAGAGGGATTCCACTTAGCCTCTTCCACTGCTCAGTCTTAGAGATCTTTCTGGCAGAGCCCTGAACTTCAGAGCTACAAAGTCTAAGATAATACAAAGGCCAGGCCCACAGATGGACATGCCAGGAGGGAAGCAGTGTGCTGCTCACTTAACCAAGGTGTCCCACTCAGGCACAGCAGACCATGGTCAGCTCCAGAATGTGGGCCTGGAAGAGACTAGGAAGGCAAAAGATCCCAACTTAGACCTTCTCAGTAACAATATGGGCAGGGGCTGCACTGACCCTTGCTTGCACTCTCCCTGCATCTCCTGTGCAGACAGATCCACCTACCTGTCCCTGGGCCCAGAAGTGCTCACCCTGCCAATACCCTCAGGAGAGGCCCTGGGGCAGCAGGCATGGAGCAGTGCAGACAAATGTGAGGCCCCTGGCCTTACAAGCCAGAGGGTAGATAGTGGGAAGGGAGTGGAGGGTGCTCTTGAGAATGGCGGGACTAAGTGTTTTGAACCTCCCCAGAGCAGAGACAGATATAACAACAGAAACTCAAGTCCTTTAGTGACCCACAGGGTTAGAATGCTGTGAGCTTGGGGACCGAGGTCCAGTGACTGGGAGCCCAGGAAAACAGGCCCCTCTCTTCGAGGCTGCCATGCTCACTGATCTGTGTTCCTTTTCCAG
Seq C2 exon
GCAGTAGTGAGAGCTCAGAGTTTAGTGAAGAAATGTCTGCAGGGCTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016910:ENSRNOT00000022755:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.704 A=NA C2=0.611
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGTCAGTTGAGTGTAGTTGACA
R:
CTTTCCAGCCCTGCAGACATT
Band lengths:
206-2188
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]