GgaINT0126095 @ galGal4
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
crumbs family member 2 [Source:HGNC Symbol;Acc:HGNC:18688]
Coordinates
chr17:8992416-8993289:+
Coord C1 exon
chr17:8992416-8992611
Coord A exon
chr17:8992612-8993149
Coord C2 exon
chr17:8993150-8993289
Length
538 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TCTGTTTTGTTGCCCCACAGTTA
3' ss Score
10.1
Exon sequences
Seq C1 exon
GCGTAAACTGTGAAGCTGAAATAGATGAATGTGATTCATACCCTTGTCAGAATGGGGCCTTGTGCAGTGATCATATTGGGTTCTACACCTGCACCTGTATGCCAGGTTACCAAGGAATCCAGTGTGAGGTGGACATCAATGAATGTATAAGCCAGCCATGCCAGCACAATGGAACATGTCATGATCTTATTAACAG
Seq A exon
GTGAGAAATCAGTATTTGTGCAGTTAGATACCAGTACGGATGTAAAATTCTGCTTAGTGTGACCTAACCAAAATTGGAGTAGAAATCCATGGAAAGAATTGGATTTAGTGTTTCCTACATTCCTACAGTGGTAGTAACTGAAGGAGTGATTAATGGCAGCATGTGAGAAGGGCCCTTTCAATAGCAGAACTCCTTGGAGGCTTACAAGAAGGTAGAAAGTGGTTCCTGTTATTGTTTCCATCTGACATATCGGATGCAAAGGGAAGTGATTTGCAGATCATGATCAGTGCAAGCAGCTGTTGAGAATGTACCTGTGTGTCAGTGTGCCTTTTCACAGGCATACTGTAGGTTTAGACATTGCTGAGGTTGACATACTCTGCCAGTAGTGTGGCCTGTTTGCTCAGAAGGAACTGTCTTTTTCCTCTGCCCACAAATGCGTATGAAGACTAACTCCAGTCAGCTCAATTTGCTCTTTCCTCACATGAGCTCAACAACAAAATCTGGAGGTTCTGCATCACTCTGTTTTGTTGCCCCACAG
Seq C2 exon
TTACCAATGTGACTGCAGTGACACAGGCTTTGAAGGGGACCACTGTGAGTTGGATATCCTGGAGTGTGCCTCTGAGCCCTGTCTGAACAATGCCACATGTGTTGAAGGAATCAAGAACTACAGCTGTGCCTGCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:2
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=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=3.0),PF0764510=EGF_CA=WD(100=56.1),PF0000822=EGF=PU(55.9=28.8)
A:
NA
C2:
PF0000822=EGF=PD(41.2=29.2),PF0000822=EGF=PU(80.6=52.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTAAACTGTGAAGCTGAAA
R:
CTGTCCAGCAGGCACAGC
Band lengths:
336-874
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]