RnoINT0132314 @ rn6
Intron Retention
Gene
ENSRNOG00000005229 | Sec16b
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:621658]
Coordinates
chr13:75205245-75206662:+
Coord C1 exon
chr13:75205245-75205385
Coord A exon
chr13:75205386-75206548
Coord C2 exon
chr13:75206549-75206662
Length
1163 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CGCCTGGAAACTCGGCTCAGCTT
3' ss Score
-1.28
Exon sequences
Seq C1 exon
GTGTATAAGCTCCTTTATGCTTCCCGTCTGGCAGATTACGGCCTGGCATCCCAAGCCTTGCATTACTGTGAAGCCATTGGTGCAGCTGTCCTGAGCGAGGGAGGGAGCAGTCACCCCGTGCTATTAGCGGAGCTCATCAAG
Seq A exon
GTGAGCGTCTCAAAGAGGTCTCTGTAGGTGTTTTATCTTCAGTGTTCAGAGGAGCCATTCTAGAGAGGCTTAAAGTCCACATTTCATCCTCTTTGAACACACGGCAAAATTGGAGCTCACGGCTGTCTTTGACCACGTATGCATGCCCCGATGTGATAAGCAGAGGTCCTGTTTGCACAGAGCACAACTGGCTGGGCAGGGGGCAGTGGGGTTGGGGGACTGGAGAGCAGGCACAGCACGCTCCGCTTGAAAAGCTCTGCTCATCTCCTTTTCTGGGTACAGTTAAACTGCAAGCTACGGTGAGCTGTTCTAATTACAAGAGCGAGCCTTTGAAAATAGATTTTAGTGATTAAAACAGGAAATGATCCTTATTAAAATACTTTTAAATGCATGGAATATTTTATCACTTGTGGGAGACATTTAAAAAAGAAAACAAAAACCATACCAACCCTTAGTTTCTTGGGAAGAAACAACAATCGGCGGCCAGTTGTTCCAATTAATTGAAGGGAAAAAAAAAAACCAAAAAAACCCCTCCATTAGTTAGAGAGTAAAAGGCAGCATGCGCTTCAATTTCTGTATTGCTTTACATGAGGCCCAAGTGCTGGATTCTAGAACCAATAAAATCCGGGCTGCAAGCCCCGCCCCCGCCCCCCGCCCCGCCCCCGCCCCGCCCCTGCACACACTGCGAGTGGGTTGCTGGCCTAGGTTGAGTGATTAGAGTTTCCAGATAGGGAACATAATGACCCCTTGAAGCAGAAAGCTGCGTCAGGTTGTGGGCAATGTAGATCTGAACCCCATCCAGACCAGACACAGAATTAGTATTAACAAGGTCCCTGAGTTTTCCCCGAATTCCTATTCTAGAAGCTTCTTGCAGAGAAGGCAGCTTTGCAGGGACACAAAAGCCGAAGAGCTATATTTTTCCTCTCATATTTTGGGGTGAAATAATGCCAGAATGGGTTGCTTATTTATTTATGCTGCAATTTTGGGAGATCTGCTGAATTTGTTATTTCTCAATTATTCTTTGTTATGTGATGTTTGAGTGAATTATGGCTCCTCCTCCTTCCTTCTTATTGCCTCTCTCCCCGTTGTCTTTCCATGTGCCCGGTTCTCTCTCTTGTCTTCTCTCACTTTCTGACCCTGACCCGCCTGGAAACTCGGCTCAG
Seq C2 exon
CTTGCAGAGAAACTGAAGCTGTCGGATCCTCTGGTTTTAGAAAGCCGCCGTGGGGACAGGGTCCTGGAACCGGATTGGCTTGTGCAACTGCGGAGGAAGCACAAGGAACTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005229:ENSRNOT00000007321:15
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=0.105
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(18.7=100)
A:
NA
C2:
PF129312=Sec16_C=PD(5.7=36.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATAAGCTCCTTTATGCTTCCCG
R:
CTCCAGTTCCTTGTGCTTCCT
Band lengths:
254-1417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]