GgaINT0131332 @ galGal4
Intron Retention
Gene
ENSGALG00000001917 | SSC4D
Description
scavenger receptor cysteine rich family, 4 domains [Source:HGNC Symbol;Acc:HGNC:14461]
Coordinates
chr19:4221761-4222531:+
Coord C1 exon
chr19:4221761-4221832
Coord A exon
chr19:4221833-4222216
Coord C2 exon
chr19:4222217-4222531
Length
384 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCATGCTGTCACCCTCCAGGGG
3' ss Score
9.17
Exon sequences
Seq C1 exon
AGCTTTCCCCCACATCAGCAAGCGAAGGACCGACCAGCAGGACTGCCACGGCCTCGGTGCAGAACGGGGAAG
Seq A exon
GTGAGCTGCTCATGGCCTGACCTGGCTGGGGGCTCTCCAAGGGGCGAGCAGAAAGCGGCACCCATGTCCTGTCACCCATCAGCCACCTCCCGTCACCCACCCACCACCATCACCCATCACCTCACCCACCATCCCAGTGTTTCCCCTCCACCAAACAGCCCTGCTGGGCTGGCCAAGAGAAGACCCCCAGAACCTCCACCTTCACGCTCAAATCCCGGTCCAAATATTCCTGCAGGATCCCATAAATTGCACCGCCCTAAAGCAGATCCTCCTCCAGGAACTTGGGTGGTTTCACCACCGTAAGCACATCCAGATCCCACCTCTGAGGGCTGATGACCTTGAAGGGACAGCAAGGCATTCGTCCCCCATGCTGTCACCCTCCAG
Seq C2 exon
GGGACGGCCGCATCCGGCTGGTGAGCGGGGCAGACGCCTGCCAGGGCCGCGTGGAGATCTTCTACCAGGGGAGCTGGGGCACGGTGTGTGACGACGACTGGGGGCTGAGCGACGCCAGCGTGGTCTGCAAGCAGGTGGGCTGCGGCCCGGCTCTGGCGTACAAAAGCAACGCCTATTTCGGCTACGGCATGGGGCACATCCTGCTGGACAACGTCAACTGCGAGGGCAGCGAGCCCATCCTCTCCGCCTGCTACAGCCTCGGCTGGGGCATCCACAACTGTGGCCACCACGAGGATGCCGGGGTCATCTGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001917:ENSGALT00000040256:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.480 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTCCCCCACATCAGCAAGC
R:
CACAGTTGTGGATGCCCCA
Band lengths:
352-736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]