GgaINT0068141 @ galGal4
Intron Retention
Gene
ENSGALG00000008141 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chr4:13907624-13908470:-
Coord C1 exon
chr4:13908408-13908470
Coord A exon
chr4:13907678-13908407
Coord C2 exon
chr4:13907624-13907677
Length
730 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGAA
5' ss Score
0.93
3' ss Seq
TTGTCATCTTCAACCCTAAGGGA
3' ss Score
5.64
Exon sequences
Seq C1 exon
GGTTTACCAGGACAAGATGGGCCACCAGGACCTCAGGGTATCCCGGGCTGCAATGGAACGAAG
Seq A exon
GTGGAATTCCTTTAAAATTCTAAACACAACAACAATAATGTGATAAAGAGCTCCTTTTCTTCTGATCGTGGACAATAAGTTTAATTTGTTGTGATACTTACAGTTACTGAGTTGTGCGTGTAATTCTTTAGTGATTCATACACTTGCATCTGAAACAAGAGGTCATGACCTGATATCTAAAGCAGCAACTGTTGATCACAACATTAGTACTCTGCAGCCAACATAGTTAACGTCTTTGTTACTTCTTCCAATACTTAATTTTATGGTTGACAACAGAGGAATGTGTCATAATTAGAATAATATGCTATGATCTTTATAGTAGACTTGCTGCCACAGAAAACTTACCACTAAACTGTGGGACTTTCTAATTTTTACTTTTTAATAATAATACCTTGAAATACTGACTCAGTGTCCCTGTTGAAAGGGATTGATTTTATTCAAATGTGTTGCTTAGCTTCACTTTATGATCTTTCTTTCTGAGAAACTGATCTTCTTTAGCACTGTGTGCTTTTTCCCTCTCTGCATTATAGTAGCTTGCCTGGAGGTTTGAAATATTTGTATTCGAAAAGCTCTGTTTCAGTCACTTGTATGATTTTTGCAAACCATTTAACGTACAGATTATCGTAATTGCTAGCTAACAATGAAACTGGGCTCTTCAGTAACCATTTGTTTATCTGTTTTTGTTATGTTTCATTTTGCTTTTTGGCTAATTGTCATCTTCAACCCTAAG
Seq C2 exon
GGAGAACGTGGATTCCCAGGCAGTCCAGGTTTTCCAGGTTTACAAGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008141:ENSGALT00000013221:6
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(3.1=9.5),PF0139113=Collagen=FE(27.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(23.0=100)
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:
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]