RnoINT0132059 @ rn6
Intron Retention
Gene
ENSRNOG00000018876 | Sdccag3
Description
serologically defined colon cancer antigen 3 [Source:RGD Symbol;Acc:1305930]
Coordinates
chr3:3829607-3830082:-
Coord C1 exon
chr3:3830020-3830082
Coord A exon
chr3:3829747-3830019
Coord C2 exon
chr3:3829607-3829746
Length
273 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CTACTCACCCTTCCTTCTAGGCA
3' ss Score
9.03
Exon sequences
Seq C1 exon
AAACGGGCTGTAAAAGCAGAAAATCATGTCATGAAGCTGAAACAGGAAGTAAATTTGCTCCAG
Seq A exon
GTAAGTAAAGAGAAAGATTTCGCTGTTACTGTACTTTGTAAAAGTCTCATAGATGTGAGCTCAGGGAGGAAGAGGTAATGTGAGCCAAGCGTGGCGATGTCTGCTTCTAATTGAAGTATTCAGGCGTCAAGGCAAAAGGGTAGTCATCCATCCGAGGGCAGCCGGGGCTACAGGGCAAGAAGCACTTGTTTTGAGTAGGCCAGGCTCATCCCATGCCCATGCAGTCTGTGCCGTTGTGATACTGTAGCACTGACTACTCACCCTTCCTTCTAG
Seq C2 exon
GCACAGCTCTCCAACTTCAAGCGAGAAAACGAAGCCCTTCGGTCAGGCCAGGGTGCCAGCCTTACCGTGGTGAAGCAGAACACCGATGTGGCCTTGCAGAACCTCCATGTTGTCATGAACAGTGCACACGCATCTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018876:ENSRNOT00000061669:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF057016=WEMBL=FE(10.8=100),PF0076914=ERM=FE(11.1=100),PF131661=AAA_13=FE(12.7=100),PF0026115=Tropomyosin=FE(16.3=100)
A:
NA
C2:
PF057016=WEMBL=FE(24.7=100),PF0076914=ERM=FE(25.6=100),PF131661=AAA_13=FE(29.3=100),PF0026115=Tropomyosin=PD(17.1=44.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGAAAATCATGTCATGAAGCTG
R:
GCGTGTGCACTGTTCATGACA
Band lengths:
180-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]