GgaINT0096083 @ galGal3
Intron Retention
Gene
ENSGALG00000011176 | SCRN1
Description
NA
Coordinates
chr2:33819894-33820636:-
Coord C1 exon
chr2:33820477-33820636
Coord A exon
chr2:33820202-33820476
Coord C2 exon
chr2:33819894-33820201
Length
275 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
CCAATTTTATCTCGTTTCAGCTA
3' ss Score
7.76
Exon sequences
Seq C1 exon
GAGAAGGGCCAGAAACTGATGAGCATTATGTTAGACCTCGAAAAGCAAGGCTTAGAAGCAATGGAAGATATCCTTACTCGTACAGAGATTCTGGATCCCGCTGAAGTAGTAGATCTTTTCTATGACTGTGTTGACACAGAACTAAAGTTCTTCAAATGAA
Seq A exon
GTAAGCAAGCACTTTAATTCTTTCGATACTGAATTTCTGGTACCAGCTGTCAGTGAATGTGAAATGTTGGATCCAATTCTGATCATCCTCTTTCACGTGAAGTTGAGTGTTTCAAAATCAGGTCCAAAGCTACCTTTCCACTTCAGTGCATCTAATTGTCTCAGAATTGACTCTTTGCCCTGTATTGAAGTGCAAGCATTTATATTTATATTTACGTTTTTCTCAGTTTCACTGTTGCTTGGAATGGATTTTAAACCAATTTTATCTCGTTTCAG
Seq C2 exon
CTACAGTGGCTACTGTTAGCCTTTTCACAGGAAGACTGCAAAGTTCTTCAAGCCTTGAAAGAAAGTCTTCACACTTATGAATTTGCAGGAAAGACATTAATAGAGGGAAAAAAATGTTACTTGCTAGCTATATCTGGTTAACAAATTGCTTTCCTTTGTCCAATCTTGTGGTGTTCCTGTTTGTGTATGTATATAGTGAAAGGAGAAAATCACTGACTGGTCTGATTACTGTGTGCATGCTGGCTAATTTAGTACAGAATGTTTAAAAATGTATGCTGGGCAACAAATTAAAGCAAAGATTAACTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011176:ENSGALT00000037800:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGATCCCGCTGAAGTAGT
R:
TGCACACAGTAATCAGACCAGT
Band lengths:
308-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]