GgaINT0126105 @ galGal3
Intron Retention
Gene
ENSGALG00000001169 | CRB2
Description
NA
Coordinates
chr17:9719555-9721061:+
Coord C1 exon
chr17:9719555-9720111
Coord A exon
chr17:9720112-9720895
Coord C2 exon
chr17:9720896-9721061
Length
784 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TGTGCTATTTTGCCTTACAGTCT
3' ss Score
9.04
Exon sequences
Seq C1 exon
AACACCCAGCAGTAACATTTGGCCTGGAGAATTCTACTAGCTTTTCCTCTTTCATCCTTTCTGATAGCCTTGGTGCAGACTTCAACATCTCCTTTTTCATTCGTAGTCTGAAACCTAACGGTTTACTGTTGCAAATCAGCAATGAAACAGACCCCTGCCTCACTATATACTTGAAGAATGGCAAGCTAAAGATTGAGATGTTATCTACAGATACTGTGACATTTCCAGAAAATTTAGTTGATGGGAGAAGACATTTGGTAGCTCTGTCTTTCCAAGGAGGAATTGTTGGCGTTCACCAACCAGACACATATGTGGAGCTGGGACAACTGGTGGGAAGGCCTCTTTTAGCTGGCTATGACGTGTATATTGGTGGACGTCCTGACCCAGACAGCACTGACCTGTGGGGAGGGTATTTTAAAGGCTGCTTGCAAGACATCCAACTGAACGGCCATCAAATAGAGTTTTTTCAGGTTGAGAACTACAGTCTGCCAGATGAACTTAATAGGACTCAAAATATTAATTTGGTAAATGGATGCATCTCTGATAACACCTGCAAG
Seq A exon
GTAGGAGGTCTTGTTTCTCTCTGCATGTGTGCAGTTGTTTATTATAGGTGTGTTACTGCGGAACAGTTTGACTGTTGCTGGTACTGTGGAAACAGAACGGGACACCTGCACTCTTAGGCCTCACTCCCGTGATGTAATTCTTATCTCTCTTTGCCCTTTTTTTTTTTTTTTATGTAACTTTTCAAATCTGAGACTTCTTTAAAATTAAACTATGGGGAAAACTTCTGTCTTGTTATGTTACTGATTTTGGCAGCTGTTTGCTTTGATTTGAATGCACACACAAAAAGAACCAAAAAGCCCACCTGAAGAATAGCAGACTGATAGATGATTAATATCAGAGGCCATAACAACAAAAATAATAGCAAAGAAGGACATTTCCTTCCCCCCCACCATCAGTAACAACGTACTGGTTGGAGTGATATGCTCAGAATAACTGCATTTTTCACAGAAAGCTTTAGACTGGTGTCCAAACCATGATTACTGTACGTGTGTGCATCTGAATATGTAGAGTTTGCAACAGCTTGAAGGTCAGCGTGCTGCAGACCAGTAGCTGTGTGGATGAGATGCTCTCTTAAGTACAGTGTCCTTGCAGACGTGCTGCCAGCTGTTCTTTTCTAAACTGATGGAGTTCTACCTGGAGAGATTTTGTCAATCTGCTGCCGATTCACTATTTTAATTACCCTTTCTCAATTCAAACGCTAATTGTCACATTTCTTTCCACCAGGTTCTCTTAGATCCAAACATGAATTATACTGCTCCTAAATTGTGCTATTTTGCCTTACAG
Seq C2 exon
TCTGAACCATGTCAGAATGGTGGAAGGTGCATTGTCACGTGGAATGATTTCCATTGCAGCTGTCCAGCAAATTTCACTGGGAAGTTTTGTGAAGAGAGAGTCTGGTGTGAAAGTGACCCATGTCCTGAAGCTACCACCTGTATAGATGTTCCAGCAGGATATGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001169:ENSGALT00000038754:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=WD(100=63.4),PF0000822=EGF=PU(3.2=0.5)
A:
NA
C2:
PF0000822=EGF=PD(90.3=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGGCCTCTTTTAGCTGGC
R:
AGCTTCAGGACATGGGTCACT
Band lengths:
357-1141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]