RnoINT0042222 @ rn6
Intron Retention
Gene
ENSRNOG00000015220 | Crtac1
Description
cartilage acidic protein 1 [Source:RGD Symbol;Acc:621085]
Coordinates
chr1:261539666-261540326:-
Coord C1 exon
chr1:261540226-261540326
Coord A exon
chr1:261539835-261540225
Coord C2 exon
chr1:261539666-261539834
Length
391 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGC
5' ss Score
10.12
3' ss Seq
TGCCACCTTCCTCCCTCCAGGGC
3' ss Score
11.79
Exon sequences
Seq C1 exon
GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGACCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG
Seq A exon
GTACGCACTGACCTCAGGCCCTTCAGCTCCCAGCCTGGTTGTGCTACTGGGGACCCACATGTGTGCGCGCCACGTGTGTGCGTGCATTAGAGCACAGAAACCCGGGCTCGCTGGCCAGCGTGGTGAAGAACCTAGGACCAGAAAACCTAAGTTCCTAGCAGAAAGGACTACTTCCGGGAGAATCCCTTGCTCAACTCTCGGCTGTCTGCCGCAAGCCTTACCCCACAGTCTCTTGGCTTTCCCTCCTCTCTACAGCAAGCTTTGCCCACATTCCTCTTTTCTCTTCTGCTACTCCTCTCTTCCCCTCCCCCTCTCCTTACATCCCTCCCAGCGTTCCTGCCTCCCTGCTCTGTGCCACCCTGGCTGATGCCTGCCACCTTCCTCCCTCCAG
Seq C2 exon
GGCTTCAGCAACAACTGGCTGCGTGTGGTGCCACGCACTCGGTTCGGAGCCTTCGCCAGGGGCGCCAAGGTTGTACTCTACACCAAGAAGAGTGGGGCGCACCTACGGATCATTGATGGGGGCTCCGGCTACCTGTGTGAAATGGAGCCCGTGGCACATTTTGGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015220:ENSRNOT00000020568:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=FE(84.6=100)
A:
NA
C2:
PF0183918=FG-GAP=PD(2.6=1.8),PF075937=UnbV_ASPIC=PU(53.4=68.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGCGTAGTGACCGACTTC
R:
CCAGGCCAAAATGTGCCACG
Band lengths:
270-661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]