RnoINT0137691 @ rn6
Intron Retention
Gene
ENSRNOG00000018649 | Slc35c2
Description
solute carrier family 35 member C2 [Source:RGD Symbol;Acc:1311250]
Coordinates
chr3:161806876-161807572:-
Coord C1 exon
chr3:161807422-161807572
Coord A exon
chr3:161806940-161807421
Coord C2 exon
chr3:161806876-161806939
Length
482 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGAACTCCCTGTCCCCACAGCAC
3' ss Score
10.08
Exon sequences
Seq C1 exon
AGCTTCCACTTTCCCCTCTTCATGACCATGCTGCACCTGGCCGTGATCTTCCTCTTCTCCGCCCTGTCCAGGGCACTGGTCCAGTGCTCCAGTCACAGGGCCCGGGTGGTGCTCAGCTGGACTGACTACCTCAGAAGAGTGGCCCCCACAG
Seq A exon
GTGGGTCCAGTGTGAGGAGGAGGGCTTGTGGCCACACGCTACCTACCTCCTCTCCTCCCCACCCCTCTCCCGCAGCCGAGTTTCAGCAAAGCAGGCAGTGTCCTTGTCTGTGCTGGTTCACATGGGCCTCAGTGGGCTCTACCAAGTGCAGAACGGGGGAGCTTCACCATGTGGCCATGCCGGGTGGGGCTAAAAGATTTCCTAGGACTAGTCTTGAGTGGGCAAGACTTGAAGTGGATGGGAACCTCTGACCCTGGGTATGCGAGGTCAGAAAGGAGAGAAGTCTGCTGGAGCAGGGAGTAGGCGGAAAGGGGCTTAGCAGGCCTAGCCAGTCAGAAGGGACTCCAGCCCTAAGCAGGATAGACTCTTTGGCTAGGGGTTACCCTGAGTTGCTTGGTGGAAGAGAAGGCAAGCAGGCACTCAGGAGTTTCAGCATTATGCTTGCCAACTGGCCGCCCTGGCTGAACTCCCTGTCCCCACAG
Seq C2 exon
CACTGGCAACAGCACTTGACGTGGGCCTGTCCAACTGGAGCTTCCTCTACATCACTGTGTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018649:ENSRNOT00000025238:4
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTCCACTTTCCCCTCTTCA
R:
GAGACACAGTGATGTAGAGGAAGC
Band lengths:
214-696
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]