GgaINT1010111 @ galGal4
Intron Retention
Gene
ENSGALG00000008266 | COL4A6
Description
collagen, type IV, alpha 6 [Source:HGNC Symbol;Acc:HGNC:2208]
Coordinates
chr4:14055856-14056604:+
Coord C1 exon
chr4:14055856-14056017
Coord A exon
chr4:14056018-14056505
Coord C2 exon
chr4:14056506-14056604
Length
488 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATC
5' ss Score
7.46
3' ss Seq
TCATCTGTGTACATTTGCAGGTG
3' ss Score
9.51
Exon sequences
Seq C1 exon
GTCTTCCAGGTCCTCCGGGACAACGAGGGCCCCCTGGACCAGCTTTTGACCAAGGTGACACAGGCAATCCAGGTTTCCCTGGTGTTCCTGGCTTGCGAGGTGGTAAGGGCGATGTGGGACCAACAGGTCCCATTGGACTCCCTGGCGTATCTGGATTCAAAG
Seq A exon
GTAATCTTGACATGAAAAGTGTCTGGGTGTCATTTGGCAGCTGTCACCATGGCAGTATGAACGCTTATTGTGTGGTGACTGTGAATGCTTTGTGTGTGAGCACAGCTGAGTTTGTTGTCTGTCTTTCCTTTCGATCCATGCAGGTTTTGCCTAAGACTGGTAAAGTGAGGCCAGCTCCAGGTTCTGGTCATTGCATCCCACATGACTTCTTAATTTTCATACTATTTTTTTCTGGGTACATGATGTCCACATGGAAGAATATTGTCAATCAAGTGTAATTATGTAGCAGTGGAAATTCTTGTCTCGAGGCTCTGCAGCCATTCTGGACATTAAGATGGGCACAGAGTTTCTTGGAGGGTCACGGTCCCCTCTGTCTCAGAGCTGAAATAGCATTATCATTGCTGCCATCCGTGTGTTTCTCAGTGCCCCAGATGTGGAATCACAACCCCGTGCTCAGCCTCTGAGGTCTCATCTGTGTACATTTGCAG
Seq C2 exon
GTGTCAGAGGTGAGCCTGGTCTCATGGGGATGCCAGGTAAAGATGGGCCTCCAGGGGATCCTGGTTACCCTGGGCAGAAAGGTGGAATGGGACATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008266:ENSGALT00000013447:39
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(71.0=80.0),PF0139113=Collagen=PU(24.6=27.3)
A:
NA
C2:
PF0139113=Collagen=FE(54.1=100)
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:
GTCTTCCAGGTCCTCCGG
R:
GTCCCATTCCACCTTTCTGCC
Band lengths:
255-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]