GgaINT0126104 @ galGal4
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
crumbs family member 2 [Source:HGNC Symbol;Acc:HGNC:18688]
Coordinates
chr17:9005123-9007108:+
Coord C1 exon
chr17:9005123-9006067
Coord A exon
chr17:9006068-9006551
Coord C2 exon
chr17:9006552-9007108
Length
484 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
ACATTTAATTTCTCTTCCAGAAC
3' ss Score
10.52
Exon sequences
Seq C1 exon
GTGTGGAATGTGCTGTTAACATCAATGAGTGTGAGGAGGGTCCCTGCAAGAATGGAGCTGTCTGTGAGGATGGCATTGCTGACTATACCTGCCACTGTGCCCCTAGCCAGGATGGCATTGTATGGGGAGGGAAGAACTGCTCTGTCAAGCTCACTGGGTGCCAGACACATGACTGCCAAAATGAGGCCTTGTGTATCCCGACTTACCAAGCTGAGAGCCACGGCCACCTGTGCCAGTGCCAGCCTGGTTTCTATGATGCCACATGCTCAACACCAACAACATTTTCCTTTGCTTCCAGAGGGTATCTCCTCATTGAGCTGCCCGTGAACAATCAGAGCAGGAGGGAGGTAGCAGGAGAGCAGCTTGCCAGTGTGTCCCTCCGGTTCCGAACCACCTTGCCCAGCGCCATCCTTTTTTACCGAGGCCATGAAGCTGAATACTTATTCCTGGAGCTCTTGGATGGCATTCTGCGTACAGAACTGAAGAGGCAGGATGAGTACCTCCTGCTGCTGGAGGAGCTGAGAGTTGATGATGGCCATTGGCATAAAGTTGAAGTTGTTCTGCAGAACACTGTGCAGCTCAAACTCTGGCACGACTCCTGTGATGCAGGTGTCTGCATGCAGAGCTCTCCTATCCCACACAATGCTACTCCGATCCCACATGCCTTCCTGAGTGTGTATATTGGAGGTGCTCAGGATCCACTGGCCAACAACACACAAAGCCAGCAGGGCTTTGTTGGCTGCCTGGAAGACTTGCAGGTGGATGCTGAAGCTGTGCTCCCGGTGGCTCTCCCTGTGAGCGAGGTTTCCTCTGTGACACAGGGCTGTGACCGCACTGAGTGGTGCCTCTCTGAGCCCTGCTTTCATGGCGGGCTGTGTGTGGACCTTTGGACAACGTTCAGGTGTGACTGTTTGAGGCCGTATGGAGGCCCTGCTTGCTCATATG
Seq A exon
GTAAGTGCCATGTGATTTACATCTGCCAGCTCCTTTGTCATTGGTGCTTCAGAGATACTAGATAAGCATTTACAGTACCTCCAGAAGCAAAATTTCCTATTTGACCAAAGAGAAGAATAAAGCAAAACCCTCTGTAAAGAAAATTCTTCTTGATTCCCTGTCACTCGCTCCTGCAGAAATGATAATCAGATCTGTGCTACAGATGTTATTCCTTGTCTGAGTAACTGTAAGAGAGTAGGGAAGTTGTTTTACTGTGAAAAGCTGAGCTTGAGCTTCAAGTGAATGGGAATGTATTGCTTTATAAACAAAACAGAAAGTGTTAAAGGAAGTTCCTTGGCATTGCTGAGTTAAAATTATAGTTATTTGCCTTCTTTATTCCTGTAAGACTTCTTTTCTTTTCTTTTTTCTTTTTTTTTTTTTTTTTATAAAGTTGCTCTGCTGTAACCTTGTCAGAGAGCTGATGTACATTTAATTTCTCTTCCAG
Seq C2 exon
AACACCCAGCAGTAACATTTGGCCTGGAGAATTCTACTAGCTTTTCCTCTTTCATCCTTTCTGATAGCCTTGGTGCAGACTTCAACATCTCCTTTTTCATTCGTAGTCTGAAACCTAACGGTTTACTGTTGCAAATCAGCAATGAAACAGACCCCTGCCTCACTATATACTTGAAGAATGGCAAGCTAAAGATTGAGATGTTATCTACAGATACTGTGACATTTCCAGAAAATTTAGTTGATGGGAGAAGACATTTGGTAGCTCTGTCTTTCCAAGGAGGAATTGTTGGCGTTCACCAACCAGACACATATGTGGAGCTGGGACAACTGGTGGGAAGGCCTCTTTTAGCTGGCTATGACGTGTATATTGGTGGACGTCCTGACCCAGACAGCACTGACCTGTGGGGAGGGTATTTTAAAGGCTGCTTGCAAGACATCCAACTGAACGGCCATCAAATAGAGTTTTTTCAGGTTGAGAACTACAGTCTGCCAGATGAACTTAATAGGACTCAAAATATTAATTTGGTAAATGGATGCATCTCTGATAACACCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:6
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(3.3=0.3),PF0000822=EGF=WD(100=11.4),PF0000822=EGF=WD(100=11.1),PF0221019=Laminin_G_2=WD(100=40.8),PF0000822=EGF=WD(100=9.8)
A:
NA
C2:
PF0221019=Laminin_G_2=WD(100=63.4),PF0000822=EGF=PU(3.2=0.5)
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:
GCAGAGCTCTCCTATCCCACA
R:
AGGCCAAATGTTACTGCTGGG
Band lengths:
351-835
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]