GgaINT0032129 @ galGal4
Intron Retention
Gene
ENSGALG00000004946 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr9:8828117-8829407:-
Coord C1 exon
chr9:8829366-8829407
Coord A exon
chr9:8828198-8829365
Coord C2 exon
chr9:8828117-8828197
Length
1168 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TGTTCCTCTGGTTTCCACAGGGT
3' ss Score
10.86
Exon sequences
Seq C1 exon
GGAAATCCAGGTATTGGAGTGGATGGACAAAAGGGGGAGCCG
Seq A exon
GTAAGGAAAAAATATATATAATTCTATAGTATAAAGAACATAAGTTTATCTTATGAAAACAAGATTCATTTATTGAAGATTCCTTGAATTGAGTGGAAATCTCAATTTTTTCCTGCTTTGGACATACACTTTTGAACACAAGTGTTTAGATTTTGGATTCCATGTGTTTAGTTAGTGATCCTACCTGCAGATCTACAAGAAAAAAAGCAATGCAAACATCTGCACAGAGTCTCACTGGGTTCCCTAAAATCCATTAATTTGTGGTTGCACACTCCCAGTGGTCATGTTAGAACAGGAGAATTTACGTAAGCTATTGAATCAGTTAATTCTGTACAGAAATAATTACTTTAGTGAGCTGCATACCAGAAACAAATGTATTTTGGGACCTGAAAGGCAATAATCAACACAGTAGATAGCATTCCTCCTATACAGACACTGCCTAAGTAATCACAACAGTACCCTCCAGTAACAGTGGCTGTATCAGATCACAGAATCACAGAATGGCCTGGGTTGGAAGGGACCTCAAGGATCATGAATCTCCAAGCCCCCTGCCAGGCAGGGCCACCAGCCTCCCCATTTACTAGACCAGGTTGCCCAGGGCCCCATCCAACCTGGCCTTGAACACCTCCAGGGACGGATCAGTTCCTTACTCTAATTTCTTGCTGCATCCAGCAACAGATGCTAAGGAAATGGTGTAAGAAAAGGACAAGCACACAATGCTTCCTCTCCCAGTTTCACCATCAGCATACTCAGAGTACAGAACTAAAGTGGAATGTCTGATTTTTCTTTTGTGAATTTATCCAGTCACTGTTTACAATCCATATAAGTTTCTACCATGCACAACTTCCCTTAGCAAATCAATAATTTCATCTGCATTCACAAAACTTTGTGTCAAAGGTTTTAGTCTAGAGCATGAGAAATTGTCATTTACTTCCCAAGCTACATTATTTTTAGTAAGTGACAAGAATAGTTAAGATTGTCAGCCATACTCGACCTGCAGAGAAGCTTATGGGTCTCAGCACAAACTCTTGTTTATCTTTAAGTATTAGTACTTGTTCAACAAGGACAAAAATACATACTGCTGTAGTGAAACAGAAAGACATTCCATATCTCACTGAAATGCTGCATGGAACAGAACATCTTTCTGCTGTTCCTCTGGTTTCCACAG
Seq C2 exon
GGTGATGTTGGACTTCCCGGGCCACCTGGGTCACCACTGTTAGTTGGACCTCCTGGAGCTCAGCTGTTCAAAGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004946:ENSGALT00000007918:12
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(12.1=50.0),PF0139113=Collagen=PU(12.5=64.3)
A:
NA
C2:
PF0139113=Collagen=FE(36.1=100),PF0139113=Collagen=PU(3.3=11.1)
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]