DreINT0007298 @ danRer10
Intron Retention
Gene
ENSDARG00000101258 | COL27A1 (2 of 2)
Description
collagen, type XXVII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22986]
Coordinates
chr16:51998722-51998862:+
Coord C1 exon
chr16:51998722-51998757
Coord A exon
chr16:51998758-51998844
Coord C2 exon
chr16:51998845-51998862
Length
87 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CACACTTTATTTCCTCACAGGGT
3' ss Score
9.12
Exon sequences
Seq C1 exon
GGCTCAAGAGGAGAGACAGGCAACAAAGGAGAGCTG
Seq A exon
GTGAGAGATGAATCTGCTCTTTCTCTCCACTCATTGATAATTCTGTGGGTTATACGTGTTTCTCATGCACACTTTATTTCCTCACAG
Seq C2 exon
GGTGTTCAGGGTCCTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101258:ENSDART00000161330:50
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(5.0=33.3),PF0139113=Collagen=FE(19.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(8.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGAGGAGAGACAGGCAACA
R:
TCGAGGACCCTGAACACC
Band lengths:
51-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]