GgaINT0126111 @ galGal3
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
NA
Coordinates
chr17:9723473-9724141:+
Coord C1 exon
chr17:9723473-9723543
Coord A exon
chr17:9723544-9724014
Coord C2 exon
chr17:9724015-9724141
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
AATGGTGGCAAGTGTACCACTGAGACCTGGGGAGCCAACTGCACTTGCAAGCCAGGCTTCACTGGAAGGAA
Seq A exon
GTAAGTGTTATTTTTGTGATGCCTTCAAAGGGGCTTGTGCTCTGATTTTTACATCTATGGGATAGCTGAACAGGTTCAAATGCTTCATCCTCTTATATATCCTTTTGCCATTCAAATAACTCCTCCAAATTATACTGTTTATTTTTAGAATGGGTGGGCTTTATATTATACTGTTAACAGTATCAATTTTCACAGCATGCATCACTTTCAAGTATTTTTTTTTTTTGCCTCATGAGGATTAATTAACTGTGCTAGAGAATCATACTGGCTTCAATCATACAGAAACGACAAATGGAGGATTCGTATGTGTAAAACTTCCACTTTGCTGGACCCTGGAGAAAGCACCTAAAAAAGATGTAACAGGAAGTTTTCAGATAAATGAGGTTTTTGTGGGCTGTTTGATCTTGTGTTCTATGACACAACAACATATGTGAGAAAATTCATTTAACTCTAATAGCTTTTCCTTTCCAG
Seq C2 exon
TTGTCAAATTAATATAAACAAATGTGATCCAAACCCCTGCCAGAATGGAGGCACCTGTCAAGACTCTGAGAACAAATTCAAGTGTTTGTGCAGTGCCAGCTACACTGGAGAGCGCTGTGACATTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:18
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=FE(74.2=100)
A:
NA
C2:
PF126612=hEGF=PD(7.7=2.3),PF0000822=EGF=WD(100=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGTGGCAAGTGTACCACTG
R:
GTTAATGTCACAGCGCTCTCCA
Band lengths:
198-669
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]