RnoINT0040313 @ rn6
Intron Retention
Gene
ENSRNOG00000020579 | Col7a1
Description
collagen type VII alpha 1 chain [Source:RGD Symbol;Acc:1311417]
Coordinates
chr8:117724550-117725243:+
Coord C1 exon
chr8:117724550-117724598
Coord A exon
chr8:117724599-117725210
Coord C2 exon
chr8:117725211-117725243
Length
612 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
ACCTTTTCTGTCCCTTCCAGCCT
3' ss Score
10.92
Exon sequences
Seq C1 exon
GAGGATGACATTCGGGGCTTTGTGCGTCAGGAGATGAGTCAGCATTGTG
Seq A exon
GTGAGTGTGTCCAGTGTGGAGTCTCCTGCCCTAACTGCATCCCAGCACCTAGACGGGGGGCCTGGCAAGTCCCCAGTCCTTACGGAGGGCAAGCGGGGATCAATGGCTATGAGCAACACAGATGTTGCAGGACAAACATGCTAACAGGACTTCCTTAATGGAGGGAGTCAGAGATGTGGGCAGTTACACAGTGTTCTGATGACTATCTGTGTGGAGGGGGAGTGTAAGGAGCAGAACTGGGCCCAGCTGTGACACAGGAGCGGGGGGATGATCCTGGGGGCCCTGCTTCTTCCTGTCACAACTGCTTTCATCTCGTTGCCTCCTGCCCCTGGCTGCCTTTGGCTCTTGCTTCCCTGGTCTATTCCTAGCTTCTCGCCCTGACGGTTCATCTCCTCTACGCTCCTTCCCGTCTTTCTCCTTCCTTCCTCCTCTTCCCTCTCCCCTGTTCTCTCTCCTCACTCCTTTGTCTCTCACTGGCTCGCTGCCTATCTCTCTGTATATCTTAGGCCCCATGCATGTGTCTTTTGTCTGCTCCTCTTTCTCCCTCTCCCTGCCTTTGCGTCTTGTTCACCATTTCTCATGGTCTCATTCTACCTTTTCTGTCCCTTCCAG
Seq C2 exon
CCTGCCAGGGACAGTTTATTGCGTCCGGATCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020579:ENSRNOT00000027994:113
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]