GgaINT0131335 @ galGal4
Intron Retention
Gene
ENSGALG00000001917 | SSC4D
Description
scavenger receptor cysteine rich family, 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr19:4223235-4223677:+
Coord C1 exon
chr19:4223235-4223315
Coord A exon
chr19:4223316-4223599
Coord C2 exon
chr19:4223600-4223677
Length
284 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
CGTGTGTCCCCATGTCTCAGCAG
3' ss Score
5.26
Exon sequences
Seq C1 exon
GTCTGGACACATCCACCGTCACATCCTTCACCACCTCCACAGCCCTGGACTATGAAGAGATGCTCACTGCCACAGCCACAG
Seq A exon
GTACGGTGTTGGCAGCAACCAGTGCCACAGCAGGGAGGGCTCTGAGGACCGGCAGCTCCCTGGGCTGTCCCTTCCATGGGGCAGCCATCACGTGGGTCCAGGTGCACCTTGGTGAGGCTCTGGGGCTCTCTTGGGTGACCTTCCCCATGGCAAGTCCCAGGGAACCTCTTCCTCGCCACCGAGGGACTTTGCCATGGGGCCACCGTGGTGCTGGCTGTGGCTCAGAGCAGGGGCAGTAGGTGCTGGGGCCTGACACCAAGCACTCGTGTGTCCCCATGTCTCAG
Seq C2 exon
CAGTGACAGACGGCCACGAGCAGCCCTCGCCAGCAACCAAGGTGGTCACCACTGTGCTCGTCACTGCCGAGCTGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001917:ENSGALT00000040256:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.370
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACACATCCACCGTCACATCC
R:
TTTCCAGCTCGGCAGTGAC
Band lengths:
154-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]