GgaINT0034836 @ galGal3
Intron Retention
Gene
ENSGALG00000002287 | CRB1
Description
NA
Coordinates
chr8:2523689-2524825:-
Coord C1 exon
chr8:2524275-2524825
Coord A exon
chr8:2523855-2524274
Coord C2 exon
chr8:2523689-2523854
Length
420 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TCTCTTCTCTTTCCCCATAGTCC
3' ss Score
12.14
Exon sequences
Seq C1 exon
AGTATATTCCAGGTCGATTTGGATCTGAGGACTCCTCAGGCTATGCTGCTTTTTCTGTTGATGCTACTGAGAATGAAAATCTGAATATATCAATGTTTGTCCGAACACGCAAATCATCTGGCTTGTTACTGGCTTTGAGAAACAGTACAAGTCTCTATGTAAGAGTCTACTTGGAAGGTGGAAAACTCGCAATGTTAGCTCCAAATTCCATAAAGTTATTAGGGAAACATCCTATAAATGATGGAAATTTCTACTTAATAACATTAAAAATAGAACCAAATATGTTGGAATTATTCCAATCCTCTCAATACTTAGGCTTTATTTCTACTCCAGTACTAACAACCCAAAGTAAGGACTTTCTTTACGTCGGAGGCCTACCAGATAACAGAGAAACTGATAGAAATGGCGGGTATTTCAAAGGCTGCATACAGGATGTACGAGTGAATAACCAGCCACTGGAATTCTTCTCCCTCACCAATTCACTGAATTCTTTTATCAATCGAACCCTGATCAATGTCACTCAAGGCTGCAGTGGTGACAACCTCTGCAAG
Seq A exon
GTAAGAATGACAGTTTTCATAGCATTTTCATGTATTTATTGTGGGGGATTAAAAAAAAAAAACCAAAAACCAGAACCCTACATTTTGTACAATATATCATGATAATAATATCTTAGCAAAATGTAAAAATGCCAGAAAGAGCAGATTTTAATACGTTTTGATACAGCAAAGTTATGATAAATATGATTGATAGCATCAGCAAAATGTACTGGTGTAGAAGAAATTGAAAACATTTTAAGGTTACAATGCTATTGTTCACAAATTATTAAAATGTTCTGTGTGGTCTTAGTACTAATCTCTATTGCTTTCCATTGGATATAAATAGAATTTTCCTTTTTTACAAAAAGTCCTACATTCTTAAGAGTTGTAAGTCCACCAAGATTTATTCATACTTTGGTTGTCTCTTCTCTTTCCCCATAG
Seq C2 exon
TCCAGTCCTTGCCACAACGGTGGTGTATGCTATTCAATCTGGGATGACTTCACTTGCACTTGCCCCCCTAACACAGCAGGGAAAGCTTGTGAGGAAGTTAAGTGGTGTGAGCTTGGGCCCTGTCCTCATGAAGCACAATGCAAGCTGGCGCACCAAGGATTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002287:ENSGALT00000003596:6
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:
PF0221019=Laminin_G_2=WD(100=64.1),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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCGGAGGCCTACCAGATAA
R:
ATTCAAATCCTTGGTGCGCCA
Band lengths:
353-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]