RnoINT0131253 @ rn6
Intron Retention
Gene
ENSRNOG00000018978 | Scart1
Description
scavenger receptor family member expressed on T-cells 1 [Source:RGD Symbol;Acc:1307378]
Coordinates
chr1:212700045-212701035:+
Coord C1 exon
chr1:212700045-212700353
Coord A exon
chr1:212700354-212700729
Coord C2 exon
chr1:212700730-212701035
Length
376 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGACATGGCCTCTTCTGCAGAGT
3' ss Score
7.4
Exon sequences
Seq C1 exon
GACACGTAGAGGCCCGGCTGGTGGGTGGAGACCATTCCTGTTCTGGACGCCTGGAGGTTCTTCGGGGACTGACCTGGGGTACCGTCTGCCATGCTGATCTGGACTTGCCCACAGCCCATGTGATCTGTCGGGAGTTAGGGTGTGGTATGGCTGTGTCCACACTTAGGGGTGCCCAGTTTGGCCAGGGCTCGGGGCCTGTGTGGCTAGAAGCCTTCCGCTGTGTGGGGAATGAATCGATGCTGTTCCACTGCCCTCAGGAGCCTGGGCACCACTGCGGCCACAACCAGGATGTTGCACTCACCTGCTCAG
Seq A exon
GTGAGTACCCATGCGGCTTCTGCAGGCAAAGTCCTTTCCTCTTCCGAACACTTCCCTGCATGGCCCACATCAGATGGTTTTAAGCAGTGCCCAGATGCGTATTTCTGGAGGAGCATGACCATATTCCTGATAAACTTGAATATGCTGGTTCAGGTAGGAGAGAAGCGATGGAAAGGGTGCTGATTGCACAGGGGTTTGTAGCCTGCTTTGTCTCCTCTGCTGCTGGGCAGAAGCAGGCTATTGGTAATCAGGTGGTGAGGATCTGCAGGGAGAAGGGCTTTATCATGTTACGCACAGAAGAAGAAAAAATCCACAGAAGTAGGGTTGTGAACTGGGTCTCTGGGATGCGGCAGTTTTGACATGGCCTCTTCTGCAG
Seq C2 exon
AGTTCCGGCTAGTCAATGGTAGCAGTGACTGTGAAGGCCGAGTGGAACTCCAAGTGCAAGGGGCCTGGGCACCCCTCTGTGCTGCCAACTGGGACCTAGCAGACGCCATGGTTCTCTGTCACCAACTCAACTGTGGCAATGCAGTATCCATACCCCCAGGAGGACATTTTGGTGACGGGGATGCCCCCATCTGGCCAGATGTATTTCATTGTGTGGGGACAGAGCCCCATTTGCTTCACTGTCCAGCAAGCACCCTGGGGGCCCACAGTTGTGTCCTGGGAAATACAGCTTCCACCATCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018978:ENSRNOT00000049269:4
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=92.3)
A:
NA
C2:
PF0053013=SRCR=WD(100=95.1)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGCCATGCTGATCTGGAC
R:
GACAGAGAACCATGGCGTCTG
Band lengths:
346-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]