RnoINT0131252 @ rn6
Intron Retention
Gene
ENSRNOG00000018978 | Scart1
Description
scavenger receptor family member expressed on T-cells 1 [Source:RGD Symbol;Acc:1307378]
Coordinates
chr1:212699012-212700353:+
Coord C1 exon
chr1:212699012-212699305
Coord A exon
chr1:212699306-212700044
Coord C2 exon
chr1:212700045-212700353
Length
739 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GGGGATGTCTCCCCTCACAGGAC
3' ss Score
8.12
Exon sequences
Seq C1 exon
ATGGCACCTTCCGGGAGATCCGGCTAGTGAAGGGCCACAGTCCCTGTGCAGGACTCCCCGAGATCAGGAATGTGAATGGGGTGGACCGCCTCTGTGGCCTGCATGTGGAAGAGGCCACGGTGTTCTGCCGTGAGCTGGAGTGTGGCCATGCACTCCAGGCCCCCCGTCAAGACGTGGGTGTCAGTAAGTACATGACCTGCAAGGGCACTGAGCCCACCATCCGTAACTGCAGACTTAACAACAAGCTACGTGGAGGCTGCAACCTGCTGCTGGATGCAGAAGTGGTCTGCTCAG
Seq A exon
GTAAGACTGCTGTCCCACGATGCCAGGGGCACCCAGAGTGATGCCTGGATCCACAGCTCAGGAGTGGGCCTTGACTCTCATGGATGGTTCTCGAGCAGCGTGCTGCCTAACAGATTAGGTTGAGAAGCTGAAGGAAAATCATAGCTTTGAACTCTGCATTGAGAGCTCTGGCATCTTCTGTGAGGTGGCAGTGTGACCAGGTCCAATGTATCACCCCAGGGTGGGGTTGGGCCAGCATGACACCCCAGCTAAGACAATTAGGGAAGGAGTTCTGATAGTAAGGGTCTAAGATGTTTCTTCTGTGATTGCTTCATGGCCAAACCATGTTAGTGAGGATTGCGCACCCGTCTCTCCTAGTCCTAAATACACATGCATGACACTGGGTGTCACAGCTGCTTGACTACATTCTAAGTAAGAGGTGGACAAGCCACCCATCATAGTGCCCACAGAAGGATACTCATACGGCCTGGGGGAGGGCCTGACATTGCCTCTGAGGGTGTGGGTGCCACTTTCTCAGACTGGCAGAGGTTGGGACAAGTGTGAGTGGTAGAACAGGGGAGTCTGAACCCTGACCTCTGAACCCTAACCTCTGGTTGCCAGTTTCTGCTGGGGTAAAAACACTGCTTGGGCAGAGGAGTTTCCCTGCCTGCAGACTCTTGTGGTGTAAGATGATAGACAGCTCAGGACTACTGACCCAGGAGCACTGGCCTCCTGTCTGAGGGGATGTCTCCCCTCACAG
Seq C2 exon
GACACGTAGAGGCCCGGCTGGTGGGTGGAGACCATTCCTGTTCTGGACGCCTGGAGGTTCTTCGGGGACTGACCTGGGGTACCGTCTGCCATGCTGATCTGGACTTGCCCACAGCCCATGTGATCTGTCGGGAGTTAGGGTGTGGTATGGCTGTGTCCACACTTAGGGGTGCCCAGTTTGGCCAGGGCTCGGGGCCTGTGTGGCTAGAAGCCTTCCGCTGTGTGGGGAATGAATCGATGCTGTTCCACTGCCCTCAGGAGCCTGGGCACCACTGCGGCCACAACCAGGATGTTGCACTCACCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018978:ENSRNOT00000049269:3
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=89.9)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.3)
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACTCCCCGAGATCAGGAAT
R:
GTCCAGATCAGCATGGCAGAC
Band lengths:
348-1087
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]