GgaINT0068146 @ galGal4
Intron Retention
Gene
ENSGALG00000008141 | COL4A5
Description
collagen, type IV, alpha 5 [Source:HGNC Symbol;Acc:HGNC:2207]
Coordinates
chr4:13903402-13903945:-
Coord C1 exon
chr4:13903883-13903945
Coord A exon
chr4:13903438-13903882
Coord C2 exon
chr4:13903402-13903437
Length
445 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTTGTTTTCATTTTTATTAGGGA
3' ss Score
8.58
Exon sequences
Seq C1 exon
GGTCCACCTGGTTCCATAGGAATACCAGGTCCAGTTGGTCCTCCAGGGCCCCCAGGTTTGACA
Seq A exon
GTAAGTTTCTTAGCCTGTTACCGATAAGATGTTAAAGAAGGCAGTTGCTTCTTTGTTTCCATGTCCTCAGAGGCAAGTTGGCAAAATGCAGAGGTTACTTTAGTCATAACTCGATATGAAGACAGTAGCAACCATGCACTCGGTTGACCCTAGAGCTGCTCTTGTGCATATGTAAATGTGATGCCTTTGAAACATTTGGCCTGTGCATAGAGCTCTTTTTACTTTAAATTTGCCTGAATCTTTCTGCAGACTGTATTGGTGTTAAACCTAATAGTCAAGATTTAGTTTATTTAGACTGTATTTTTAAGCCCTTAAGGAACATTTCACTTAAAGGAAGAGCTCATATCTTGTGTATCTATGAAGTTTAGTACTAAACAATTCCTTTTTTTCACAAGAGAACATGCAAAGTGCTTGAAAGAGTAACTTTTGTTTTCATTTTTATTAG
Seq C2 exon
GGACCTCCTGGTCCACCAGGACTGCCAGGACCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008141:ENSGALT00000013221:10
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=FE(33.9=100)
A:
NA
C2:
PF0139113=Collagen=FE(18.6=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]