RnoINT0143664 @ rn6
Intron Retention
Gene
ENSRNOG00000001141 | Srrm4
Description
serine/arginine repetitive matrix 4 [Source:RGD Symbol;Acc:1560213]
Coordinates
chr12:45879781-45880603:+
Coord C1 exon
chr12:45879781-45879891
Coord A exon
chr12:45879892-45880468
Coord C2 exon
chr12:45880469-45880603
Length
577 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCA
5' ss Score
7.33
3' ss Seq
CCGCTGCTGTACCCCTTCAGGGA
3' ss Score
8.58
Exon sequences
Seq C1 exon
GTCCTACTCTCGCTCTCCCAGCTATTCTTCCAAGTCTGGCAAGAGGAGCCCACCTAGCAGAAGCTCCAGGTCTCGTCGAAGTCCGAGCTACTCCCGCTACAGCCCCAGCAG
Seq A exon
GTATCACCACCACCACCCCCAACCAGAACGGATCCCCGCTCCTCCTGAGCCACATCCCTTTGGCCTTGCCTTTCTGTACCAATCTCCCAAGCCCTCTCCCAGCAAAGGTAGAGACAGGAATTCTTGAAATCTTTTTTGTCCAATCAAGAGTGGCAATACGCCCTTTATTATACTATCCTTTCACATCCGGGTGCTCAGTTTTCCGACTTGACTTGTGTCCTTTTGCCCATTTATTCACAGCCTCAATTCTTGCCCACCCCAGGGCCTTCTGATATGTTCCTCCTCACACACCAATATTTGTGCTTCTGCCAAGGGACACACACATGCGTGCACGCATGCATGATCAAAAGGCCGCCTCTCTGGCTCATGCCCAGCTCACCCCCATGGTGCTCACGGAAGCAGAATCTTCCCAGAATGGGTCATCTTCCCTTCTCTGTCTTCTTTGTGGCCCCTGGCAAAGCCCAGCCTCAGTGGACATGGCTTAGAGTCTCACACAGCATGCACCTGTTAGAAAAGCCAGCCCAGCCCTAATTACCTAGTCACGCCCCTCCCCTGTCCCGCTGCTGTACCCCTTCAG
Seq C2 exon
GGAACGGGACCCAAAGTATGGTGAGAAGGAACCACAGCCCCGAGAACGTGCACGCAGGAGGCGAAGGTCCTACTCGCCTATGAGGAAGCGCCGGAGAGACTCCCCAAGCCACTTGGAGGCCCGGAGGATAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001141:ENSRNOT00000001507:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152301=SRRM_C=PU(10.9=18.4)
A:
NA
C2:
PF152301=SRRM_C=FE(70.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTACTCTCGCTCTCCCAG
R:
CTGGTTATCCTCCGGGCCTC
Band lengths:
246-823
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]