RnoINT0132327 @ rn6
Intron Retention
Gene
ENSRNOG00000005229 | Sec16b
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:621658]
Coordinates
chr13:75183888-75184787:+
Coord C1 exon
chr13:75183888-75184032
Coord A exon
chr13:75184033-75184635
Coord C2 exon
chr13:75184636-75184787
Length
603 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
TACGTGTGTCTGTTGTCCAGATG
3' ss Score
7.13
Exon sequences
Seq C1 exon
CCATCGTTGACCAGCAAATCCAACCTTCTCCAACAGCACGAGTCTGGGCTCAGCTCTAGTAGCTATGAGCTCAGTCAGTACATGACCGAGGCCCCTGAGCAGTATGAACCTATGGTGTCAGCAACTTGGAGGCCTATTCAAGCTG
Seq A exon
GTGGGTACCAAGTGGCCGTGGAGCTGGTTAACTCTGATAAGGAAAGGCTGGGCCACGTGGGAAGTCACCCTTCTGTGTTACCAGGAATACCTTATTGGCTTACGCAGGTCTCTCAGGCAGAGAGGCCAACTTTGGATCGTTTTCCCGCCTTGTCTTTAGTAATGGTGCATGCATCCGATAGCTGGCTCTTAGAAGGGAACACTGCTCCTAGTCATCATTAGGTTGGGCCAGGAGGCACTCTGGAGTGGTTTCAGGCAACACGTGAAGGGAATGAGGACCAGGGAGGACTGGGTGGAGTGAGGTGAGGCAGCAAGTGTGAATGCTGGTCTGGAGGCTTGCTGCATGCACGGGAATACTGGCTGCAGAGGCTGCTCATCCTCTGGCTGCAGTTGAGAATCTGAGGTGAGTGCATTAGCATTCAGGCCATTTGCATTATAATCTGACCTACTCTTAGAGGGTCAAGTCTGACTTGAGTGTGACTTTTTCTAACTAAGTATCCCGCCCAGCTTCTCACCTTGGCCCAGGTGGAATTTGAACAGAAATGTATGAACTAAAAAGCACTGAAAATAAATCTAACAATGTCTACGTGTGTCTGTTGTCCAG
Seq C2 exon
ATGACACCTCAGCGACCGTTCCCAAGGCACCCATGAGGTTCTACGTTCCCCACGTGTCTGTGAGCTTTGGGCCAGGAGGCCAGCTGATATGTGTGTCCCCCAACTCTCCTGCTGATGGACAAACGGCCCTTGTTGAAGTGCACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005229:ENSRNOT00000007321:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.776 A=NA C2=0.157
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.3=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATCGTTGACCAGCAAATCC
R:
TCCATGCTGTGCACTTCAACA
Band lengths:
296-899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]