GgaINT0077057 @ galGal3
Intron Retention
Gene
ENSGALG00000012068 | C4orf21
Description
NA
Coordinates
chr4:58685209-58685793:+
Coord C1 exon
chr4:58685209-58685336
Coord A exon
chr4:58685337-58685669
Coord C2 exon
chr4:58685670-58685793
Length
333 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
TCTATACCATTCTTATTTAGGTT
3' ss Score
9.22
Exon sequences
Seq C1 exon
GTAAAAGTGGTTGGAGTGACCTGCGCTGCCTGCCCGTTCCCTTGCTTGGATACTCTTAAGTTTCCTGTAGTGGTGCTGGATGAGTGCAGTCAGATGACTGAACCTACTTCTCTCCTTCCTATTGCAAG
Seq A exon
GTACCACCATCCTTCTGTGTTTCAGAAGAGAAGTAACTTTTAGTTAGCAGTGACACAGCCTCAAATCACCAAACTTGGATGTCCTTTTAAGAACACAAATTCTGAGGTCTCACCTTAAAAACCAAGGAGAGTAATTACAAATTAAGTCCTGCTTTTAGATGCTTTTCTTGAGTTACTGTGTTACTTTAACTTTGGAAAGAAGAGCAATGGAGAAGGAAGCCTGATAGAAGGCAATCCACAACATCAAAAAGAGAGATTGCAGTTTCAGTACAGATAGTTTAACATCTTTTTAGAACCTTTTTTAAAGGCTTTTTCTATACCATTCTTATTTAG
Seq C2 exon
GTTTCAGTGTGAAAAGCTAGTCCTCGTTGGAGATCCTAAGCAACTGCCACCAACTATTCAAGGGTCTGAGAGCATTCATGAAAAAGGACTGGAGCAGACTCTCTTTGATCGGCTTTGCTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012068:ENSGALT00000019715:12
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=0.119
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(18.1=100)
A:
NA
C2:
PF130861=AAA_11=PD(9.5=52.4),PF130871=AAA_12=PU(5.9=26.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGTGGTTGGAGTGACCTGC
R:
AAGCAAAGCCGATCAAAGAGAGT
Band lengths:
246-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]