RnoINT0131142 @ rn6
Intron Retention
Gene
ENSRNOG00000019987 | Scand1
Description
SCAN domain-containing 1 [Source:RGD Symbol;Acc:1308530]
Coordinates
chr3:152381665-152382529:-
Coord C1 exon
chr3:152382316-152382529
Coord A exon
chr3:152382217-152382315
Coord C2 exon
chr3:152381665-152382216
Length
99 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CTTACCTCATTCCCGTGCAGACG
3' ss Score
8.72
Exon sequences
Seq C1 exon
TCCGTCTTCTCCGCTTCCATCTCCTCAGTCTGCGGCAACGATGTCTCCTCCAATAGGAGCTCTTCAGGGTTGCCATCATTACTGCCTGAAAAGCTGGTATCTATGGACTCCCCAAAGGACTTCCCCCGCTCAGACTTCACGTGACTTGTAGGGGACGCGGTTTCCGGATTCTTGGAGCCCTCCATTTCCGGCCTGAGGAGCTTCGCTGTTAGAG
Seq A exon
GTAAGCTCGGCTCACCCGCGGTCTGTCCTAAGTCCGCGTCCCGCCGAGGTGCGCGGGTTCTGCCCTTCAGCGGGTCTCTCTTACCTCATTCCCGTGCAG
Seq C2 exon
ACGCAGAAGGCGCGCGTAACTGCGAAACAAAGGGTGACGCGGACAGCCGTAGTCATGGCGGCGCCGCAGCCCAGCCAGGCCGCCCAAAGCCCCGCGGCGCCGCCCGAGCAGGAGGAAGGAGCTGGCGACTGTGCGGCCCGGGAGCCCGACTCCATGAGCTCCCCTGCCCCGGAGCTCCCCGGCGCGCCCGCAGCTTTGAACACAGCGCCTCAGGCTGACGCCGCCCCGAGGCCCGGCGCCTCTCGTCCCGGCCCCGAGACCTTTCGCCAGCGCTTCCGGCAGTTTCGCTACCAGGATGCGGCGGGTCCCCGGGAAGCCTTCCGGCAGCTGCGGGAACTGTCCCGCCAGTGGCTGCGGCCGGACATCCGCACCAAGGAGCAGATTGTGGAGATGCTGGTGCAGGAGCAGCTGCAGGCCATTCTACCCGAGGCGGCTCGGGCTCGGCGGCTGCGGCGCCGCCCGGACGTGCGCATCACCGGCTGAGCGGCGGAGCCCCGGGCTCCCTGGACTGACAGCCTACCCCGAGTTAATAAAAGTTGAATTTTGACAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019987:ENSRNOT00000027076:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF119893=Dsl1_C=WD(100=47.6),PF0202312=SCAN=WD(100=51.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
GGGTTGCCATCATTACTGCCT
R:
CCTTTGTTTCGCAGTTACGCG
Band lengths:
181-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]