RnoINT0131250 @ rn6
Intron Retention
Gene
ENSRNOG00000018978 | Scart1
Description
scavenger receptor family member expressed on T-cells 1 [Source:RGD Symbol;Acc:1307378]
Coordinates
chr1:212706054-212706790:+
Coord C1 exon
chr1:212706054-212706191
Coord A exon
chr1:212706192-212706600
Coord C2 exon
chr1:212706601-212706790
Length
409 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
TCCTGGGATGGTCTCCACAGGTT
3' ss Score
6.81
Exon sequences
Seq C1 exon
CTCCTTCCCTGACGCCTCCACCCGTTGCTGAGGCCTGGAACCTGCCTGAGGTTGCCTGCTTGGTGCTTGGCTGCCTCCTGGGCATTGTCTTCCTGGCTATGATTGCCCAGTGGTGTCACATCAGAGATGCTAGCATGG
Seq A exon
GTATGGCATGTGCTGGTGTGGCTTTCAGGGAAGTGTGACAGGAAGTTGGGGGATGCTCTATGAGATCCTGACCCCAGCAGGCATATCTTGTTTTTGGCACTGCCTTGCACTCTGGCAGGTCTCTCGTAGCCACTGCTGAGTTAGATTCTGGGAACCCTAAGGTGTGGTCTGGAGGATGCTGGGACCTTTTCCTCTACACTACTAAGTTGGTGTGACATTCTGCATACCCAGGACTTCTCCATGTCTCGCTCCATCACGTGTGCCATCTCGTGGTGGGATGCCAGACCTTTGAGTAAGGGGTTGACCTCAGTGAGCAGTTACATCACACACAGGAGGCTGCAGGTCCCAGGAGGGTGGGGTGAAATTAGAGGAATGCTTGTTCTGGAACATCCTGGGATGGTCTCCACAG
Seq C2 exon
GTTCTGGCATGTTGGGGAATCTACAGTCAGATGGTGTCTATGAGGACATTGAAGTTGTCCCTGTGATGAAGAAAGAGGAGAACGCAATATCCAGGCTGCTGATGCTGGAAGACGGTTATGATGATGCTGAAGAGCCCGAGGGTCAGCCTACAGAGAGTGAGGAGGAGTGCAATGGGCACTGCTGAGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018978:ENSRNOT00000049269:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.393
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
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:
CTCCTTCCCTGACGCCTCC
R:
AAGCTCAGCAGTGCCCATTG
Band lengths:
327-736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]