RnoINT0132316 @ rn6
Intron Retention
Gene
ENSRNOG00000005229 | Sec16b
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:621658]
Coordinates
chr13:75207855-75209391:+
Coord C1 exon
chr13:75207855-75207927
Coord A exon
chr13:75207928-75209079
Coord C2 exon
chr13:75209080-75209391
Length
1152 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
CTGCTGCTTCTTCTTCATAGACA
3' ss Score
8.56
Exon sequences
Seq C1 exon
CAAACTAGAACTGGAGACCTCAGAGATCCTGATCTGACTCCTTCAGATATTTATGGAGCCAGAGGAACAACAG
Seq A exon
GTACCCACCATAAGATCTGACTACCACTATCTGATTAAAATATTTTCAGCTATACCCGCACTTCCTTTGCCTTGGTGCCTTCTTCTTCTGGAAATCAGACCTGTTGATCCAGGCTGCCTCTTTGGATAGGCCCTTGCTGGTCTCACAGACCCTGGAAACATCCAAATGTCCATAGCATGAGGGTTCCTGCTTCACAGGTTAGAATTCCCAAACACTTGATCATTTCTCAGTTTCTTTTTACTGCTAGCTAATTGTCTCACCTGTGTGTATACTCGCTCCCAGCTAGCTATACTTCTTGAGGCCAGAGATCACACACTATTAGTATCTCTCGTGGTGTTCTAGACATTGGAGTTGTGAAGCTTTTGAGCTATCAATTGGCCATAGAGTTGAAATCAATTTTAAAGTGTTTTCCCAGCCTCCTCCCTCAGAATGCCTCCAAGTGTCTGGTCAGCAGGAATTATATTCCAAATTAACTCCATATATTTTGTCAAAGCCACCCCCTCTGGTGGTGAAGTTCAGACAAGGTACCCCCGTCTATTGCCTTGCAGCCTTTAGTACTTCCTGGATGGGCTGAGTGTAGGGAGGCTTTGGCTTCTGTTTCTTGGCTTTGTGAGAACCTGGCTGGGCGTCTCTACATCATGATGTTCTTCCAGCCCTGGCAGGAAGGCTGGCAGCTCACAACATTCCTGTGCCCTGGGGCCAAGCATTTCATATACCCACACCTTAGTTGAAGCATCAGCCAGGCCCCCTCTAGGGCAAATGAATCCTCACTCTCCCCAAGTGAAGCCATCATCTCTAAAGTGTCATTTGAGTTTAAAAAAAAAAAACAGTTAAAAACTGTAAGCCTTTAAAGTCTAACAAAGTCCCCTTAAAGGAGAAAGTGTTTATCCAAATATTAAAAGGAGTAGAGTTCAGTTGGATGTCTTTTCTGTCCTCTCCACTCACAGGAGAAGGACTCAGAGATTATCCAAGAAGTGAATGCGTAATTCTGCAGACAACAGAGAGGTGTTATATAGCTAGTCAGTACTTTGCTTGCTAGCAAATTAATGGAAGCCACATGGAACAGCCAGCCCATGGGATTGCTTTCTAGAGAAGACAAGAGCAGGAATGTATAAGAATGATTTGTCTATAACTGCTGCTTCTTCTTCATAG
Seq C2 exon
ACACTCCCTACCGCGATCTTTATGGCCAGCAAAACTACTCAGAAGACTCTGAGTACAGCTCAGCCTTGTGGCCAACATCTGAGCAGACAAGCCTGACCAATCCCACCCCACAGCAGCCTTTCCCCCTGCAGCGAGATACCTACTCAGAGAGAGATGGCCCAGTACACATGGGGACCCCAGTGCCTCTTTACTCAGTTCCTGCAACCCACCTGACAGTGATTAGTGGCTCCAGTAGTGGCAGCGGTGTGGCAGTGACAGGGGCTCCTGGAGGAAGGGTTGGAGAGGAGATGCTGCAGAAACATCCTGCCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005229:ENSRNOT00000007321:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.960 A=NA C2=0.952
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGAGACCTCAGAGATCCTG
R:
CTCCTCTCCAACCCTTCCTCC
Band lengths:
351-1503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]