GgaINT1010114 @ galGal4
Intron Retention
Gene
ENSGALG00000008266 | COL4A6
Description
collagen, type IV, alpha 6 [Source:HGNC Symbol;Acc:HGNC:2208]
Coordinates
chr4:14056887-14057641:+
Coord C1 exon
chr4:14056887-14057033
Coord A exon
chr4:14057034-14057524
Coord C2 exon
chr4:14057525-14057641
Length
491 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
GTAACCATATTTGATTTCAGGTG
3' ss Score
6.76
Exon sequences
Seq C1 exon
GTCTCCCCGGCCAACCAGGGGCTCCAGGTATAACCCCACAGGCAGAAGAAATCACAGCCCCTGCAGGCTTACCAGGTCTGCCAGGGATTGATGGCGTCCCTGGCTTTGATGGAGATCCTGGATTCCAGGGCCCAGTTGGAAAGCCAG
Seq A exon
GTAGAAACACACTCAGATCACTGAAATTCTGTTCTCCTGGAAGAGGAATACTTTCTCAGTGCATTAGGAAAGTTTTTCTAGCAATGGAAATAATTCAAGCCAAAAACATACAAATGCCATGTTTTACTATTGTTAGAATATGCTCGATAAATTCTTGCACACTTTGATAGTGCTTTTGAATTAACACTGCAGAATGAGGAGCAGCAGCTGTGGTATAGCTGGTATGATGCCAGCTTTGGTACCAGCAGATGGAGTGGTCCTGAAAGTGATTCACTACTGAGAATTATATGGAGTGTCAGTGGAATACTGCGACTGCAGAAGTGATGTGAACTTTAGCCTGAGCCGCTACCACTAGTTTGTAACTAGAGCTGTTTAAGAATGAGCTCTCAGTATGGCCATGGATAATGGATTTCTGCTTGTGAATATAGCTGTGGGACTGAAGGTATGAGTAATGAGGAGGTAACAACAGTAGTAACCATATTTGATTTCAG
Seq C2 exon
GTGCAAAGGGTCTGCCAGGCAGATCTGGTTTGAAAGGACGTGACGGTTTACCTGGATCACCTGGCATTGCTGGTGACCCGGGACCTGTGGGTGCCCCAGGACCTCAGGGATTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008266:ENSGALT00000013447:41
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(19.7=24.0),PF0139113=Collagen=PU(51.7=62.0),PF0139113=Collagen=PU(0.1=0.0)
A:
NA
C2:
PF0139113=Collagen=PD(46.7=70.0),PF0139113=Collagen=PU(63.9=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCCCCGGCCAACCAG
R:
TTCAAATCCCTGAGGTCCTGG
Band lengths:
263-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]