RnoINT0132301 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3878867-3881505:-
Coord C1 exon
chr3:3881369-3881505
Coord A exon
chr3:3878965-3881368
Coord C2 exon
chr3:3878867-3878964
Length
2404 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
ATAGCTCTTTTCCACCGCAGGCA
3' ss Score
8.06
Exon sequences
Seq C1 exon
GATATCTATGGCCTGTATGAGCCTCGTTACAGACCCTATGACAGCTCGGCATCTGCTTATGCCGAGAACCACCGCTACTCTGAACCTGAGCGGCCCAGCTCCCGTGCAAGTCACTATTCTGACCAGCTCACTCCCAG
Seq A exon
GTGGGAACACATCCCTTGTGGCTGCTTTACTCTCATACTCAGTTGTGTGTGCTGTTGGCTATGATGGTGACTTAGTGATGATAGTAATTCTTTATCTGTAGAGAATCCTTCAAACCCATTCTGTCAGCATGAACAGACCAGAGCTAAGTACACTGCCACATGTAGTCCTAGCAGAGCTGTCACTTAGCATTTGTCCACAATCTTTAGCCAGGCCAGACTCTAGGTAAGGCCATAAAGAAGTGATCTCTATGCTGATAGATGAATGGTTGTTCCTGTCCTGGGCACACCCACTCTGCTGCTGGCATTTTGGTTGTGGGTGATTAGGGATCTTAGATTAGGGCCGCAGATGTTTTTAACGTCATGAGGACCCTGTCACAGAGATGGCATAATCCACCGTCCACCAAATGATCTCTAACACAAGGACGGACTAAAAGCTGTGTTCTGTGCCCAGCTCTGCCCACACTGGTGAAAGTCCCCCGCCCTCCCCAGCCTGCATATCTCCTATACTGGCTATCCACCACCCTGGCATTGTGCCCTCTGAGTAAGTCTGTAAGCCAGGTCAAAGTTCCATCTCATTTTCAGTTGCCCAGAGCCTGCTTTTCATCTTGTATCACTCTAGGCCATTGACTCCATTGTGAAAAATAGTGGGGTGCTGGCCTTGGTCAGTACACTCTTTTACCTCAGTTTCTGCAGTGTCCTCTTACTTAAGCCCAGTAGTCAAGGAAAGCTCATGGTAGCTGACTTTGCTATAAGAATCCTTCTTTTCCTTAGAAACTCCCAGCTGCTAAGGTTGTATGTACACTTGCTCTCAGAGTTTTCTGTAAGTTCTTGAGGTATCTGGTAACTTGTCTGAAGACACACTGCTTTGCGTGTGAACCTTTGCCCATTTAGCTATCCTAATGTACCTTGCTCCAGAGGTACATGCTGAACCATGCACAGGCATCCATAGCTAATCATTGTAGGTCTTTATGAAGCAGCAGTACGGAGGCTTGGGTGAGTTTCGGAGTGCCTGCCTGGTAGATATGAGCCCCTGGATTGGATCCCTACTACATACACTTCAAGCACATGCACACGTGTGTGTTTGAGGAACAGAGACAGGGAGACAGACAGACACATACTTGGTTGTGAGAAAGTTTGGGAAAATCTTAGATGGGAAGTAGCTTTTGGACTCATACAGCTCAGCTTTCTGATTGAAAATCTGTGAGAGGAGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCACAAGGCCCTGGGTTCTGTCCCCAGCTCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAGAAAATCCGTGAGAAGGCAAGAGGCATGTGGATCTGTTTGCTGGAGTGCAGAAGGGAGAAGGCATGGGGGCAAGAGCCAGGGTGAACCAGTTTGCCTTCCACGTGTCTGCCTGCAACTTTATTTAAGAACTAACTTTGAAGAGTGACTGAGGCTCAGGCTGGGTGATCTGTCTATGATGACAGCTTTCCTTCCTCTCTCTGGGTCCTTTGAGTGTCTCTCATTTGTCACAGCCCACAGAAGCTTGCTCTCTTGTCTGTGTGTCTATGTGTGTGGATGCTCAGTGCTGATATTCAGTGTTAGGGCCATAGCATCCCTGGAGGACCTGCTTGAGGTGGGACACACTTCTCATGTTTGTCTGGGTCCTTCCTGAACTGTATGTAGGTAGGTTGGTGAGAGCAGCTGAGGTAGTGGCAGGCTCTTGATCTCACTCTATATCAAGGTGTTTTTCTGGAATCAATGTCAGATGAAAGTCTGGGGTGGCCAGCCTGAATGAACCTTAAGGCCAGGTTGGTGGTATTCCTGGGCTGCACATCTGGCCAAGTAGATGCTATGCTAGCCAAACAGCCAAGCTCAGTTGAGCAGTTTCTTAAAAGGGTCTCAGAAAATTCAATAGTGTTTAGCGCTTTTGACATTCCTGAGAGTGTCAGATCCTCTTAAGTAAGTGCACTTACTCCCTCTTTTTTGAGTAAATCTCACCTTCTCTGTAATGAGTCAGGGGCATGGTTCAGTTATTGGGCATAGAAGAAGCTAACTCTTTATTGATCTGCTGGCGCTGGCCCTGGCTCACCTCACAGATCCACTCCTCCAAGGCCACACTGAGCACTCGTAATTAGTAAGGTCACTTTCTTGTGGTTCACCTTTGTAATTCCATCACTATGGAGGTACAGGCAGGAAGCTTGTCATGAGTTTAAGGCAGGCCTAAGCTACACAGTGAGACACAGTTTCAAAAAAAGAAAAAAGAAATGCTTCTGATCTGGTCAGAGGTTTCCATAACTGAGGTGTCCTCATGCATGTCTATGAGCTTTGAGTTGGCTACTCTCTCAGTACACTTTAGAAATAGATACTGTGTTTAATAGCTCTTTTCCACCGCAG
Seq C2 exon
GCAAGGATATCCTGAAGGATACTACAATTCTAAGAGTGGATGGAGCAGTCACAGTGACTACTACGCAAATTACTACTCTGGCCAGTATGATTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.663 A=NA C2=0.169
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]