GgaINT0032152 @ galGal4
Intron Retention
Gene
ENSGALG00000004946 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr9:8804993-8805639:-
Coord C1 exon
chr9:8805565-8805639
Coord A exon
chr9:8805101-8805564
Coord C2 exon
chr9:8804993-8805100
Length
464 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTTATTTCATTTTTTTTAAGGAT
3' ss Score
9.59
Exon sequences
Seq C1 exon
GAAAGAGAGGTGACCCAACTCTTCTGCTTGGTACACAAGGTCAGAAAGGGCCTCCTGGAGATCTAGGATTACCAG
Seq A exon
GTAACTTCTTTCTGATTAAAGAAAAAAAAAGTTGAACATGAGAAACTTTCTGTAAGCTTTGTTAGTGGAGAGAGAGCCCTGCTTTCTGTATGAACTGAGCTGTATTTTCCACAGTTATAAGCCCGGGGAATGGAGAGGCACCACAATGTGTAACACAGCTATTACAAACATAAGAGGTATAGTCTGGTATGGTCTAGTACAACACTGGTGAATATCCTGAAACCTTCCAGAATATTTGTCTGCTTCTTACTCACCATTTCTACTTTTTCAGATATCAGAGAAAGCTGCATAACTTATTACTGCTAAATAGATGCAAGCATCTTATACAATAGGAGAAAATGCTTTTCTATTCCAGAAAAATCTTACCAAACATTTAGATTTTTTTTAAACACACGAGGTGAAGAATTGGGTAACTTCATACACAAGACTTCAAGATTTTATTATTTTATTTCATTTTTTTTAAG
Seq C2 exon
GATTCTGTGGATTCCCAGGTGAGAAAGGTTCACCAGGTATCCGAGGGCAACCTGGAAGACCAGGATCCAAGGGCGAGCCTGGATACCCAGGAATACCTGGATTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004946:ENSGALT00000007918:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(9.8=23.1),PF0139113=Collagen=PU(26.2=61.5)
A:
NA
C2:
PF0139113=Collagen=FE(59.0=100),PF0139113=Collagen=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]