RnoINT0143823 @ rn6
Intron Retention
Gene
ENSRNOG00000001435 | Ssc4d
Description
scavenger receptor cysteine rich family member with 4 domains [Source:RGD Symbol;Acc:1306970]
Coordinates
chr12:23759192-23760250:+
Coord C1 exon
chr12:23759192-23759269
Coord A exon
chr12:23759270-23760175
Coord C2 exon
chr12:23760176-23760250
Length
906 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
AGGCTCCCTTGTCTCCACAGCTA
3' ss Score
9.05
Exon sequences
Seq C1 exon
TTCTGAGCCCTCCAACTTCCACAGCACTGCCTCCCTCTGTCACCAAAGAAGACTGGGCATGGCACACTGAGCCAGCAG
Seq A exon
GTAAAGAGCCCACTCTCCCAGCTCGAAGGGCTGGGACAAGTCAGGTAAAGTAGGAACGAGGGAAGCTCTTCTGGAGACACAGGAAAGGGACTTTTAAGCGAAGGCTTTGGTGCAGATGGGAGAGATGGGGTGAGATGAGCAGATGGGAGCACGGATGACACCCAGAGCTCTGAAGAATTAAGGGTGGATAAGAGTTTTCTTTTTCTGTAGCCCTGGCACTCCCTTAGTAGACCAGGCTGGGCTCCAAGTCACAGAGATCCACCAGCTTTGCCTCTTGAGTGCTGGGATTAAAGGTGTGTGTCACCACTGCCCAGCAAGAGACGTCTTTAAAATGCTTGAGTCAAATTGGGGGTTGCTGCACAGGTCGGGGATTGAGAGCCCATGTGCAGGAATTCAAATCAGGAATCAGGGTTAGAGGGAAGTTTGGAATTAGGACTACAGGTATCACTGCGTGATTAACATTACGGTAATTTAAGACCCAGGAGTTGAGGGGTGTAATTCACAGGGTTGACTGCTTGCTTATCAAGAACAAGCCCAAGGATTCCGTCTGAAGCACTACATAAACCAGGCATGACGGGTCACACCAAGATGAGGCAGGAGACTGGAGTTCAAAGCCAATTGAAGCTACACAGCCAGACCTTGCCCCAAAAACCCAAAAGATTTAAATCCCAGCACTTGGGAGGCAGATCTCTTATGTGAGATCAGCCACCTATATAGTCAGTTCTAACCCAGCCAAGGCTACATACTGAGAGCCTGTCTTGAAAAGAAAAAAGAAAATGGGGAGGAAAATCCTAAAAGATCTTTAATACTGGACAGACAGCACGGTGACTCTGGGACTGAGGCTAAGTGAGGTGTGGGTGGGGTTAAGTGGCCTTGCCCGCTTCAAAGGCTCCCTTGTCTCCACAG
Seq C2 exon
CTACAGGAGTTGGTGCCCTGCCTTCCAGGGATACCATACGGTTCACCACGGCAGCCTGGGCCTCAGGGAAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001435:ENSRNOT00000001953:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
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
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]