RnoINT0132326 @ rn6
Intron Retention
Gene
ENSRNOG00000005229 | Sec16b
Description
SEC16 homolog B, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:621658]
Coordinates
chr13:75182684-75184032:+
Coord C1 exon
chr13:75182684-75182783
Coord A exon
chr13:75182784-75183887
Coord C2 exon
chr13:75183888-75184032
Length
1104 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TTTCTTTTCTCCCCCTTCAGCCA
3' ss Score
9.76
Exon sequences
Seq C1 exon
ATTTACCAGTAAGAATCCATACAATGACAACCCTGCTTCCGCGTTTGGACTGGAGCAGCCTGGGGAGTTCTTTCCAGAGAGTGGAGCCCAGAAACAAAAG
Seq A exon
GTAACCTAAAGTGGCAGGGGACTGGAGGCACTAAGCCACCTTGTCAGCAGTGGCTCGCGGGGATGGGGCTCTGCAGCTGCCAGCAGAGTTCCCACTCACACCTCCTTCCCCTGCTTTCTTTCCCTCTTCTGTCTTACCAGTCCAAGGCCCTGGCCTGACCTGCCCCTCTGTCAAGTGGGAAGGACTTACTTTACTGTGAGGTACTTGGAAAGTGAAGAGGCTGCCACCACGTTTTAGGTGTCAGGGCGCCCCAGGGGACTAGAGGTTTAGGAAATAAAAAGTTGTTAGAATGTTTTAACTTAGGTTTGAAAAGCAGCCTTGAAATCTTTCCCGACTCTTTAATCTCTTTTCTTTAAATCCTAATGCACGCACCATCTAGGTCACAAAATAGAGAGCTCTTAATAGTATTGATATAAATGTTTTATTATGAGATAATTTTAGATTTATAGAAAAGTTGCAAGAATATTGTAAAGACGAGCTTTTAACTTTTTGGCAGGCTCGGGTTAGTTTTTTTCTCCCTGATTAGATTCGTGAGATTTATTTATTTATTTTTCGTCAGTTTTTCTCTATCTACTACTTAATAACATAGGGCATAGGTTATGGTGACTGATACTGAAACCCCAGTGTGTAAACAGCACTTTACTATGTACAACAGCTTTCTAATGTCCTGTTTCATTCATCTCTCCTGCAATGAAACATTTTTGCATACGTCTCTGCGGGATATGATCCAGAGTGTACATGTGATTACATAGTAGCTAGTGCATTAATAAGTGATACATATGGGACAGATACCTTAAATTTATATTGCAGATGGAGATATTGGAGGAAGGAAGCCCAAGTCACCTGTTTAAGGTCCTAGCAGAGTGGGACGGAAATAGAAATTGAAATTCAAATTCTAGGTCTCTTGAGCCCACTGGGCCATGCTCCACCGGATAGAGTGGAAAGAATGCTTTCTTCTCTCTGTGAATCCACTGTCGCTGTGTCACTGTGCTTACTGGGAAGTTTGAACTTTGTGTCTTCGAAGGAGCCCTTGGAGGTGGGAGGACAAGCAAGCTCTCTGGAACTCCTTCCTCTGTAATTTCATTTTCTTTTCTCCCCCTTCAG
Seq C2 exon
CCATCGTTGACCAGCAAATCCAACCTTCTCCAACAGCACGAGTCTGGGCTCAGCTCTAGTAGCTATGAGCTCAGTCAGTACATGACCGAGGCCCCTGAGCAGTATGAACCTATGGTGTCAGCAACTTGGAGGCCTATTCAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005229:ENSRNOT00000007321:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.971 A=NA C2=0.776
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAAGAATCCATACAATGACAACCC
R:
CAGCTTGAATAGGCCTCCAAGT
Band lengths:
238-1342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]