RnoINT0040303 @ rn6
Intron Retention
Gene
ENSRNOG00000020579 | Col7a1
Description
collagen type VII alpha 1 chain [Source:RGD Symbol;Acc:1311417]
Coordinates
chr8:117721540-117721935:+
Coord C1 exon
chr8:117721540-117721575
Coord A exon
chr8:117721576-117721854
Coord C2 exon
chr8:117721855-117721935
Length
279 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
TTAACACCTTTTCTCCCCAGGGA
3' ss Score
10.45
Exon sequences
Seq C1 exon
GGCGAGCCAGGTGCTGCAGGGATCCCCGGTGAGCCG
Seq A exon
GTAAGACACCCCAATCCCATAGAGAGCCCCATCCTCATAAGGCCCCCATTCCCATGATGACCAGGCCCATGTAGTCTTTTAGGGGCCTAGTTTTTATGACCTTCCTTTTCTAAGAAGCTCTTGCCTCTATAGTGAACTTCATGATGGTGACCTCAGCCCATGCTGACTCTTGTCCCCGTGGCAATAGGTGGTGACCGGAGACCCCTGCCTGCACTCTAGTGGCTCCTCTTGATCCCCCACTTTCCTGTCTTGATCCCTGTTAACACCTTTTCTCCCCAG
Seq C2 exon
GGAGCCCCGGGAAAGGATGGAGCCCCTGGTTTCCGAGGAGACAAAGGAGATATTGGCTTCACGGGTCCCAGGGGTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020579:ENSRNOT00000027994:104
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(1.6=9.1)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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]