GgaINT1026429 @ galGal4
Intron Retention
Gene
ENSGALG00000001917 | SSC4D
Description
scavenger receptor cysteine rich family, 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr19:4223600-4224813:+
Coord C1 exon
chr19:4223600-4223677
Coord A exon
chr19:4223678-4224501
Coord C2 exon
chr19:4224502-4224813
Length
824 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
GTGCGGGCGCCCACCCGCAGGTG
3' ss Score
7.65
Exon sequences
Seq C1 exon
CAGTGACAGACGGCCACGAGCAGCCCTCGCCAGCAACCAAGGTGGTCACCACTGTGCTCGTCACTGCCGAGCTGGAAA
Seq A exon
GTAAGCATGTGGCTGCTGCTGGTCTGGCACGGCCCCCAGCCCGAGGTCCTCCTGTTGCAGCCCCCTCACTGCCCCAGGAACATGGCCCCATCTCCCCCGGGTGTAGCCCACCCACCTCAGGGTTTGCCCCACAGCCCCCGGGATCACCCCACATATGTGTTCAGTTCTCCCTGGGTCTCCCCCATCTCCCCATTCTCCCCTCGTGCACCCGGGAACTTCACCCTATACCTACTTGGGTACCTCCTTCGTTCCCAGGGTCTCCCCCCATCTCCCCAGGGCTCCTCCCCTGATCCCGGGGGTTTCACTACATACCCATAGGGATACCTCCCTCATTCCCAGGGCTCCCCAGCATCCCTAGGAGTCTCCTTTCATCCTCCCAGGGCGCCTCCCATTCTCTCAGGGGCTCTCCACAACTCCCCTTCCCCCATCTCCCCAGGACCTCCACCCCCTACCTGCAGGGTTGCCTTCCTCATTCCCAGGGCTCTCCCACGTGCCCGGAGGGCTCCCCCCATCCCCCCATCCTCGCAGTGGCTTTACCCCATACCCGTAGGGCAACCTCCCTCATTTCCGCGGCTCCTCCCACGTCTCCAAAGGGCTCCCCCTCCGATGGGATCCCCGTGGGGACCTCCCCATCCTCCCCCCACGCTCCCAGGGGGCTCCTCCCATCCTTCCAGCACCTCCACGCCGCGCCCCCTCCTTCATCCCCAAGCCTCTCCCCACCCTCCCAGGGTCTCCCCCAGCCGCTCCCCACCCCTCTTCCCCCCCACGCCCCCCTTTCCCCCCTTCCCGATTCCCGCAGTGGCTGTGCGGGCGCCCACCCGCAG
Seq C2 exon
GTGGCGGCGTGCGGTTGGCGAACGGCAACGGGAGCTGCCGCGGTCGGGTGGAGGTGCGGCACGGCGGGACGTGGGGTACGGTGTGCGACGACGACTGGGACTTCCCCGACGCGCAGGTGGTGTGCCGGCAGCTGGGCTGCGGGCCCGCCGTCTCCGCCACCGTCCTGGGTTCGTTCGGGTACGGCAGCGGGCCCGTGCTGCTGGATAACGTGGGGTGCGACGGGCACGAGGCGCGCCTGGCCGACTGCTTCCACCTGGGCTGGGGGCAACACAACTGCGGCCATCACGAGGACGCGGGCGTCGTGTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001917:ENSGALT00000040256:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.370 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=93.3)
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:
CCCTCGCCAGCAACCAAG
R:
GTGATGGCCGCAGTTGTGTT
Band lengths:
342-1166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]