DreINT0007359 @ danRer10
Intron Retention
Gene
ENSDARG00000031678 | COL5A2 (2 of 2)
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr9:42861124-42861369:-
Coord C1 exon
chr9:42861316-42861369
Coord A exon
chr9:42861223-42861315
Coord C2 exon
chr9:42861124-42861222
Length
93 bp
Sequences
Splice sites
5' ss Seq
TTGGTACGT
5' ss Score
8.11
3' ss Seq
TTACTTTTCACATTCTACAGGGT
3' ss Score
8.76
Exon sequences
Seq C1 exon
GGTTTGACAGGTACGCCTGGAGTTCAGGGTGCTGAAGGAAAACCAGGACCATTG
Seq A exon
GTACGTTTATCTGATGTTTTCCATGCATAATAAAATATCCACACATGTACTGTAACAGGAAAATTAATAAATGTTACTTTTCACATTCTACAG
Seq C2 exon
GGTGCTCCAGGTGAGGATGGACGTCCAGGGCCTGCAGGGTCGACAGGAACAAGAGGCCCTATCGGAACTATGGGACCAATAGGACCCAAGGGTTTTAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000031678:ENSDART00000144744:26
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:
NO
A:
NA
C2:
NO
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:
AGGTACGCCTGGAGTTCAG
R:
TAAAACCCTTGGGTCCTATTGGT
Band lengths:
143-236
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]