RnoINT0137688 @ rn6
Intron Retention
Gene
ENSRNOG00000018649 | Slc35c2
Description
solute carrier family 35 member C2 [Source:RGD Symbol;Acc:1311250]
Coordinates
chr3:161801229-161802192:-
Coord C1 exon
chr3:161802063-161802192
Coord A exon
chr3:161801909-161802062
Coord C2 exon
chr3:161801229-161801908
Length
154 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
TATGGTGTGTCTACCCCAAGGTG
3' ss Score
7.32
Exon sequences
Seq C1 exon
GAAGTCTGCACCCTGCTATTGGCAGCTCACCTGCTGGGTGACCAGATCAGCCTTCTGAACTGGCTGGGCTTCGCCCTCTGCCTCTCTGGCATCTCCCTTCACGTGGCCCTCAAGGCCCTACATTCCAGAG
Seq A exon
GTACTGTGGCCTCCTCCCCACGGCTTAGCATTACTGACTGTCCTGCCATCCAGCCCCCGCTCACCAGCTGTTGCTGTAGATGGGGACATGTGCCAGATGGTTCTGGCCCCCTGAGAGGATATAGGGTCAGTAACTATGGTGTGTCTACCCCAAG
Seq C2 exon
GTGATGGTGGCCCTAAGCCCCGGAAGGGCCTGGGCTCCAGCGCCGACCTGGAGCTGTTGCTCCAGAGCAGCCAGCAGGAGGAGGACAACGGTGAAGAGGAGTATTTCATGACCCAGGGGCAGCAGTGACCAGCTCGGAAGCAGCATAAGCAGACCGCTCTCCAGTCGGCCACTCTCCAGTCGCCACTGCTCCAGGGGCCCGGCTGGTTCCTCAGAGCAGCTGCAAGTGGTGGCCGCAGAGCCACCGGCAAGAGCTCTGAGGCTCCTGTTCTCTCCTGTGCAGCTTGGTCCCACAAAGCGAAGCCAGGCTCACCTGGAGTCTGAGCTGTCAGTGAAGGGAGCCAGTGGCCTGTCCACTGTTGCTCTGGCTCTCAGAGGTGAGGTAGTTTCTCAGGTTCAGACTGTGGGACATCTGGGAAGGAGTCATGGAGAGGCTGGGCCTCATCACCTGGACAGCAGCTTCCTCAGAGAGTAGATTTATTTATAGTTGAAATAATGATTTCCTTCTCCACAGCACAATGTTGCCTAAGGCACGAGAGCAAGGAGAGCCCTGGGGCCTGGCCTCTCCTCCGTTCCCTGCCTGGGGCCTGGCCTCCTGCCTTCTGTAGCTCATGCTCCTGTTTGTGACCCAGGTCCACACCATGGACCCACAGCAGGAAATAAATGCGTGTTTGCCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018649:ENSRNOT00000025238:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.310
Domain overlap (PFAM):
C1:
PF0315111=TPT=PD(23.2=79.5)
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:
CCCTCAAGGCCCTACATTCCA
R:
CTTGCAGCTGCTCTGAGGAAC
Band lengths:
250-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]