GgaINT0126106 @ galGal4
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
crumbs family member 2 [Source:HGNC Symbol;Acc:HGNC:18688]
Coordinates
chr17:9007893-9009729:+
Coord C1 exon
chr17:9007893-9008058
Coord A exon
chr17:9008059-9008861
Coord C2 exon
chr17:9008862-9009729
Length
803 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CACTATTCCTTTATTTATAGGTC
3' ss Score
8.7
Exon sequences
Seq C1 exon
TCTGAACCATGTCAGAATGGTGGAAGGTGCATTGTCACGTGGAATGATTTCCATTGCAGCTGTCCAGCAAATTTCACTGGGAAGTTTTGTGAAGAGAGAGTCTGGTGTGAAAGTGACCCATGTCCTGAAGCTACCACCTGTATAGATGTTCCAGCAGGATATGTGT
Seq A exon
GTGAGTACTGTTATCCTGCTTATGTGTTGGTAAAGTCCTCAGGGTCTACAGCCTACTCTATTCCTAATTCTCACTGTTGTGATAAATATAAACACATGCTGGAATTAGCAAGCTAAGAATGGTGGCCAAGTACGTACTGTTACAGGCAGCACATACTTTATGGATTTACCACCGGTATGTGACAGAGTGAAGATGACACTCAAAGATGTTTTATTCTGTTACTGAGACTTGATCAGGGAGGAGCCTGCCCTCTATCAGAGAGCGATTGCCTGCCCTCTCAACATTGCAGTGCATGGGCTATCTTTTTTCTCTAGTGTTCATTCATTCCAAGAGTCTTACATTGTTTCACTAACTAAGACAATGTGTTTTCAACTAAGACAGAAGCAAAGACAATGAAGAAAGCTAGATAGTTTATGATTCCCTGCTTTGGAGGGAATGTCCTTAGTGGCTGCAAAGTGTCCAGGAACACAGGATGTTGGCCAATTTTCAGCAGCTTTGGATGTGTTGCTTTCCTAACTTACATCCTATTTTTTCTGTAAGAAAAAGGTGATAGTTTTATTTGTGTGCAGTGCTGTGAAATTAATGAGTAAAAATTGCTAGATAAGAGCTAGATATTACTAGTAGGAGTGTAATTGTAAACAGGAAGAGCTTTAATGATGCCAGCCACTGAGCCTCTAATCCTACTCACACAAAGCTTACGTGACTCTTAAGAGACGAAACGTGCCAGGAACTTGCATTGGCCTGCTGCAAATATTACACCTACTGTCTTTCAAACCCTTGATGCACTATTCCTTTATTTATAG
Seq C2 exon
GTCTGGCTAACGCAACATTTAATAGTTCTGCTACCATTGAATTTACCACCAATACATCAGTGACTAGAACTCTGGGCAGCCTCCTCATGGATTTCAGAACCAGAGACGAAGACGCTGTTTTGCTTCGGGCTATGGAAGAAGTGGACTCCCTCCAGATAGCTATTAAGAACTCCTCCTTGCTTGTTGACATCAGGAGTGGGAATAGTATTGAAGGTGTCAGCTTCCTGAGTCAGAATGCTGTCACCGATGGCGCCTGGCATACAATCTCTCTGTCAATGGAGGAGCCTTCTGCACTGTCTTCCAGATGGGTGGCTCATTTGGATGGATCTATTAATATGACTCTGCAGGGAAATGCTGGGAACCTGGACTTCTTAAAGAACAACGCACTGATTGTTCTAGCTGAAAACTTCACAGGCTGCCTAGGACAAGTGAAGATAGGAGGGATCTACCTGCCATTCACCTCCCATCTCTCATATCCTCAGCCAGAACAGTTCCAGCAGTCCAGCAGAAGAACTATCCAGTTAGGCTGCACGGGGGCTGATGTTTGTGCTTCTAGCCCTTGCAGCAATGCTGGCACCTGCAGGGACTTGTTCAACTCCTTCAGCTGTGCCTGCAGTGCTGGCTGGGAGGGGCTGCTGTGCGAGTCCAATACTGATGACTGCCAGTCAAGCCCATGTGTTCATGGAAACTGCACCGATAGACTAGCAGATTTTCAGTGTGAATGCTTCCGGGGATATATTGGGAAGAAGTGTGACATCAATGTGGATGACTGTGTGCGGCACCAGTGCCAAAATGGAGCTACCTGCATTGATGGGGTTTATGGCTACTCCTGCAAGTGCCCAGCACAGTATTCAGGACCTCGCTGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:8
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(90.3=50.0)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=40.7),PF0000822=EGF=WD(100=10.7),PF0000822=EGF=WD(100=12.8),PF0000822=EGF=WD(100=13.1)
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:
AGTGACCCATGTCCTGAAGCT
R:
GCAGAAGGCTCCTCCATTGAC
Band lengths:
347-1150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]