GgaINT1026428 @ galGal4
Intron Retention
Gene
ENSGALG00000001917 | SSC4D
Description
scavenger receptor cysteine rich family, 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr19:4222217-4223315:+
Coord C1 exon
chr19:4222217-4222531
Coord A exon
chr19:4222532-4223234
Coord C2 exon
chr19:4223235-4223315
Length
703 bp
Sequences
Splice sites
5' ss Seq
TGGGTAATG
5' ss Score
5.68
3' ss Seq
GTCTTTCTGTGTCCCTGCAGGTC
3' ss Score
14.57
Exon sequences
Seq C1 exon
GGGACGGCCGCATCCGGCTGGTGAGCGGGGCAGACGCCTGCCAGGGCCGCGTGGAGATCTTCTACCAGGGGAGCTGGGGCACGGTGTGTGACGACGACTGGGGGCTGAGCGACGCCAGCGTGGTCTGCAAGCAGGTGGGCTGCGGCCCGGCTCTGGCGTACAAAAGCAACGCCTATTTCGGCTACGGCATGGGGCACATCCTGCTGGACAACGTCAACTGCGAGGGCAGCGAGCCCATCCTCTCCGCCTGCTACAGCCTCGGCTGGGGCATCCACAACTGTGGCCACCACGAGGATGCCGGGGTCATCTGCATGG
Seq A exon
GTAATGGGGCACGAGGATGGGACGTCCTTGCATGGAAACAGCCTGCCTGGCCAGGACAGGGGGGAGGGAGAGGAGCCAGGGCTGGGCACGCCACCAGGCTTGCCCCCTCGCTGCATTGCCCAGCCCTGCCATTATCTGCTGATTACCGTTTATATTGTTAATAACTCCCTTGAACTCCCTCGTTATGTTGGATAACGAGTGGAGCAGGAGATGATGGTGCTTTTGCTTTTCTGCTATTTGCTAACAAAGCTGCTGATGGAGTGGAAGGGCCAATTTGCTAAGGATGCCCCTCTCCTCCCCAGACATGGGCTATGCTGTGCTGGGGCTGCGTGGCAGCACTCAGTGCCCATCAGGTGGGGCAGGATTTGGGGAATCCAGCTTTGGGGTGGTGGTGAGGCTGCTCACACCCTGCCTCTGCCGTGCTCCTGCTGCTCAGACACAGCTGGTGAATATTTGATGTATCGAGCTTCAAAAGAGCACTTGTAGCACTTGCATAGAGCTGGAGAACCTCTATTTGCAGGATGTGGGCAGTAAGGATGAAGGAGGTCCATCATCTCCATCTCCTTCATCATCTCCATCTCCTCCATCATCTCCATCTCCTTCCTCACACCACTCCACCCTGCATCCTGGGGTCACAGCTGGAGGGTTATGTGCTTTGCAGTTTCTTCCTGCCTGTCACCCCTGTCTTTCTGTGTCCCTGCAG
Seq C2 exon
GTCTGGACACATCCACCGTCACATCCTTCACCACCTCCACAGCCCTGGACTATGAAGAGATGCTCACTGCCACAGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001917:ENSGALT00000040256:7
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=0.071
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCGTGGAGATCTTCTACCA
R:
CTGTGGCTGTGGCAGTGAG
Band lengths:
350-1053
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]