DreINT0050288 @ danRer10
Intron Retention
Gene
ENSDARG00000021720 | col7a1
Description
collagen, type VII, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-030131-2427]
Coordinates
chr6:40197757-40197972:-
Coord C1 exon
chr6:40197919-40197972
Coord A exon
chr6:40197806-40197918
Coord C2 exon
chr6:40197757-40197805
Length
113 bp
Sequences
Splice sites
5' ss Seq
ACGGTCAGA
5' ss Score
5.42
3' ss Seq
TTCTCTCTGTACTGTTAAAGGAG
3' ss Score
5.65
Exon sequences
Seq C1 exon
GGTGAAATAGGCCCTGAAGGATCAAAAGGAGACAGAGGAGAAGCAGGAATGACG
Seq A exon
GTCAGAATAAATGTTGTTTTTTTTATTTGTTCTGCTACTTGAGCCTCTTAATGAACACTCGAGATAAGTGACAATGACACAAGGACTGGTTGCTTCTCTCTGTACTGTTAAAG
Seq C2 exon
GAGGATGAGATTCGGACTTATGTTCGATCTGAGATGAACCAGCACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021720:ENSDART00000154878:111
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=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAAATAGGCCCTGAAGGA
R:
CACAGTGCTGGTTCATCTCAGA
Band lengths:
103-216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]