RnoINT0131248 @ rn6
Intron Retention
Gene
ENSRNOG00000018978 | Scart1
Description
scavenger receptor family member expressed on T-cells 1 [Source:RGD Symbol;Acc:1307378]
Coordinates
chr1:212704844-212705408:+
Coord C1 exon
chr1:212704844-212705158
Coord A exon
chr1:212705159-212705384
Coord C2 exon
chr1:212705385-212705408
Length
226 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ATCTCATATTTCTGTTGCAGGTG
3' ss Score
11.41
Exon sequences
Seq C1 exon
AGGACAGCGTATTGCGTGTGCTCGGAGGCGAGGATGGCTGTTCCGGGCGTGTGGAGCTCTGGCACGCAGGCTCGTGGGGCACAGTGTGTGATGACTCCTGGGACCTGCTGGATGCCCAGGTTGTGTGCCGGCAGCTGGGCTGTGGCCAGGCCTTAGCTGCTTTGGAAGGTGCCGCCTTTGGCCCTGGTATGGGGCCTGTGTGGTTGGATGAGGTGGAGTGCCTTGGCAGCGAGGTGACCTTGGAGGCCTGCCAGGCTGAGCTCTGGGGACACGGAGACTGCACGCACAAGGAGGATGCAGGTGTTCGTTGTGCAG
Seq A exon
GTGAGTTGGCAGCAGGTAGAAGAAGGGTCAGGGTTTCTACATTGATTTCTTTAGCTGTCCTTTATGCTCGGGCTCATAAGTAGGCCTGCCCTGAAATGTAGTGTTCCATTGGGAGCTCCTTATAACCCTATGCACCCATGCTAAGCTGTTAGTTAGTAGAGGCTACCTTTTAGGTGTGAACACATCTGTTCTACTGAGACTTTCCCATCTCATATTTCTGTTGCAG
Seq C2 exon
GTGTCTCCACAACCACTGCATTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018978:ENSRNOT00000049269:10
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:
PF0053013=SRCR=WD(100=92.5)
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
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGTGGAGCTCTGGCAC
R:
ACAATGCAGTGGTTGTGGAGA
Band lengths:
292-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]