RnoINT0039363 @ rn6
Intron Retention
Gene
ENSRNOG00000024824 | Col22a1
Description
collagen type XXII alpha 1 chain [Source:RGD Symbol;Acc:1309081]
Coordinates
chr7:113132864-113133582:-
Coord C1 exon
chr7:113133529-113133582
Coord A exon
chr7:113132918-113133528
Coord C2 exon
chr7:113132864-113132917
Length
611 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
TTTTATACTTTCCCTTTCAGGGT
3' ss Score
12.73
Exon sequences
Seq C1 exon
GGCCCGCCTGGACCACCCGGTGTTCAAGGGCCCCCTGGACCAGGAGGTCCCCCG
Seq A exon
GTAAGACTGGCTTGACTTTCTCTCATAGCATTTTCAAGGGCAGGGGATGGCTTTCTATGCTGGTGACCAAAATAAAGCCAGAGACAGGAAGATTCTGAATGCAGATGCCTCCAAGCTTCTGCATTCTCAGGCTCCTGGGTCTAGCACTTATAAGTGACAGATAGGTCAACATAACACTTGGTATCTTCTTCTGCCATGGTAAGGGGTGCATCGTGCTAGTGTGCTATTCAAATATGCATAGTTTTTTGTAGTCTATTCTCACAAAACAATACCAAGGCCAGTGTTTGTTAATACTCTCCCCTCTATCCTTTAAAGATCATCTAGGAAACTGTCCCATAGCAGGTCGTGAGCAGGGTAGACCCAGCAGTATGCAGAGGAAGTATTCAGGCTTAGGTGGACATGACAATGGTCTCAGCTGCAGAACAGACACACTGTGAGCTTACCAACCATAGATCTGGGGCAAATCTGTGTGTTACACTGGCTGGCTGTGAGGGTGGTAGACAGCCTGAAGTACTCTCCTTAGAGCCAGAGGCCTGATCCTATGACAGAGATGGCATCATGACAAGCTCTAATCTCAAATAGACTGACGGGTTTTATACTTTCCCTTTCAG
Seq C2 exon
GGTTTACCTGGTGAGCTCGGCTTCCCGGGAAAACCTGGGCCTGCTGGGCATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000024824:ENSRNOT00000034672:23
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:
PF0139113=Collagen=FE(20.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.0=100),PF0139113=Collagen=PU(18.4=77.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]