GgaINT0126111 @ galGal4
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
crumbs family member 2 [Source:HGNC Symbol;Acc:HGNC:18688]
Coordinates
chr17:9010424-9011138:+
Coord C1 exon
chr17:9010424-9010540
Coord A exon
chr17:9010541-9011011
Coord C2 exon
chr17:9011012-9011138
Length
471 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TAATAGCTTTTCCTTTCCAGTTG
3' ss Score
6.8
Exon sequences
Seq C1 exon
ATGGCCGTTCCCACCTGAGCAGTGTGGTAAGAACTTCACCTGTCTGAATGGTGGCAAGTGTACCACTGAGACCTGGGGAGCCAACTGCACTTGCAAGCCAGGCTTCACTGGAAGGAA
Seq A exon
GTAAGTGTTATTTTTGTGATGCCTTCAAAGGGGCTTGTGCTCTGATTTTTACATCTATGGGATAGCTGAACAGGTTCAAATGCTTCATCCTCTTATATATCCTTTTGCCATTCAAATAACTCCTCCAAATTATACTGTTTATTTTTAGAATGGGTGGGCTTTATATTATACTGTTAACAGTATCAATTTTCACAGCATGCATCACTTTCAAGTATTTTTTTTTTTTGCCTCATGAGGATTAATTAACTGTGCTAGAGAATCATACTGGCTTCAATCATACAGAAACGACAAATGGAGGATTCGTATGTGTAAAACTTCCACTTTGCTGGACCCTGGAGAAAGCACCTAAAAAAGATGTAACAGGAAGTTTTCAGATAAATGAGGTTTTTGTGGGCTGTTTGATCTTGTGTTCTATGACACAACAACATATGTGAGAAAATTCATTTAACTCTAATAGCTTTTCCTTTCCAG
Seq C2 exon
TTGTCAAATTAATATAAACAAATGTGATCCAAACCCCTGCCAGAATGGAGGCACCTGTCAAGACTCTGAGAACAAATTCAAGTGTTTGTGCAGTGCCAGCTACACTGGAGAGCGCTGTGACATTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:10
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:
PF126612=hEGF=PU(84.6=27.5)
A:
NA
C2:
PF126612=hEGF=PD(7.7=2.3),PF0000822=EGF=WD(100=72.1)
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:
GTTCCCACCTGAGCAGTGTG
R:
GTTAATGTCACAGCGCTCTCCA
Band lengths:
238-709
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]