RnoINT0132290 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3881369-3887349:-
Coord C1 exon
chr3:3883703-3887349
Coord A exon
chr3:3881506-3883702
Coord C2 exon
chr3:3881369-3881505
Length
2197 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
CCCCAAACTTCTTTCCACAGGAT
3' ss Score
9.38
Exon sequences
Seq C1 exon
CACAAATTACAGAAAAGACCTACCCTGCCTCCTTTATAAGCAGCATCTCCTGCAGGAAAGACTCCACCATGCAGCCACCACCTCAGGCAGTCCCGTCTGGTGTGGCTGGCCCACCCCCAGCTGGGAATCCTCGAAGCTCGTTCTGGGCCAACAGCCCTTACAGGAAGCCAGCCAATAATAATGCACCAGTGGCTCCCATAACACGCCCACTGCAGCCAGTAACGGATCCGTTTGCTTTTAACAGACAGACTCTTCAAAACACACCAGTGGGCAGTTCATCCAAAAGCAGCCCACCTAATTTGCCTGGCCCAGCCCTCCCTGTTTTTTCTCAGTGGCCTGGTTTGCCTGTGCCTCCCACAAATGCTGGGGATAGCTCCACAGGACTTCATGAGCCTCTGCCAGGAACTCTGTCACAGCCTAGAGCAGACCCCAGTCTATTTCCTCCTGCATCTACCCCTTCTTCATTGCCTGGGCTGGAGGTGAACAGGAGTGCTGAGGTTGATTCCAGCTCAGGACCTGAAGTCCAGATGCTGCCACATCCACCTCACTACATTCCAGGAGTGGGTCCTGAGCAGCCTCACGGAGGCCATCTGAATGACAGTGGGGCTGGGCCTGACCAATCCATGAATAGGCACGCCCCACATGATGGTGCTGTGGCCCATGCAGCATCTCCTTTCTTCCCTCAGCCCCAGATGCCAGGTCAGTGGGGGCCTGTGCATGGAGGCCCTCCGCCCTCCTATCATCATCACTCACCCTGCCTGGAGGGCCCTGTTCAGGACATGGGGCCCCAGGCTGCCAGCTTGCCCCATTTCCCCTCTCCATCTAGTCTACACGAGGGACCTGGCCATGAGTCCCGTGTCCCACAAACGTTTACTCCAGCATCCTTGGCCAGTGGTGAAGGAAATGAGATAGTCCACCAGCAAAGTAAAAATTACCCATCGAGTAGCTTCCCCCCTAAACACAGTTTTGAGCAGAATTCCAGAGTTGGGAATATGTGGGCAAGCGCGGAGTTCAGGCAGAATCCAGGAGTTAATAAAGAGCATCTGCTAGACCCTGCCCATGTGAATCCCTTCACTCAGGGAAACAGCCCTGAGAACCAGGTGCACCATCCCCCAGTGGCCGCAACTAACCATGCCCTGCAAGAAGCAGCCTCCGGAGCGCTCTCAATGTTTTTTCAAGGGGAGGAGACAGAGAACGAGGAAAATCTCTCATCTGAAAAAGCAGGCCTTGATGACAGATTAGACTCGGGTAGCTTCTCTTCTACCTCCAGACTGGGCCATCCACCACTCCCTGGAGCTGGTGGTGTCTACCAGGCCGCTCAGGAAGGAGATGTGCAACCTTATTTTTCTCAGTTTGTGGGCATCCGTCATGACAAACAGACCACTATGACTCCTGCTAATGATGCGTGGGGTGATATTCCGGGTGCTGGGACCCACTGTGCTAGTGGGCCACAGTGTGAGAATGTAGAGAACCTAGAATTTGTTCAGAATCAAGAAGTTTTGCCACGTGAGACCGTGAATGTGGATCCCTTTTCCCCGAGTGATCAGTTTCGATATGGGCCCCTTCCTGGGCCAGCTGCCTCCAGGCCTGTTACTTCGGGCCTCACTAGAGGAGGAGGGCTAAATCTTGAGGCCCCTGACATGCCACTGCACCCTACACGACCTGACAGTGTGTCATCCAGCTACAGCAACCATAGTCACAGAAGTCCTCCTGGGTCAGCCAGACCCCAAGAATTGGTGGGCACATTCATTCAGCAAGAAGTTGGAAAACTCGAAGATGATACGTCAGGGAGTTTTTTTAAGCAAATTGATTCTTCTCCGGTTGGAGGTGAAACAGATGAGATGACCAGGAGTCAAAATTACTGCAGCAGCCTGTCCCAGCCTTCAACTCCAAGCCCTCCAAAACCTACGGGAGTCTTCCAGACAAGTGCAAATAGTTCTTTTGAGCCAGTAAAATCCCACTTGGTTGGAGTGAAACCAGTTGAAGCAGATCGTGCCAACATGGTGGTTGAAGTGAGAGGGACCCAGAACTGCCAGAAGCACGGGGCCGCTGTTCTACCACCTGATGCCACCCCAGGAAACCTGGAACAGCCACCAGACAACATGGAGACCCTGTGTGCACCTCAGGCCTGCCCTTTGCCTCTTAGCACCACTGGAGAGGCTGGGCAACTGGTTTCACACACAGCAGGGCCACCCTTGGATACTGTGCGCCCCATGCCTGACAAGAGGTCCTCAGCCAGGGCCCAGGGGCCTGTGAAATGTGAGAGCCCAGCCACAACTCTGTGGGCACAAAACGAACTGCCAGATTTTGGGGGCAATGTCCTTCTAGCCCCTGCTGCCCCTGCACTTTATGTTCCTGTAAAACCAAAACCTTCAGAGGTTGTTCATCATCCAGAAAAGGGCATGTCTGGACAGCAGTCATGGAAATCAGGGTCTGTGCCCCCTTTGCAGAACCAAGACCCTCCTGGTGCTTCTGAGAACCTTGAGAACCCTCCCAAGGTAGGAGAAGAGGAGGCCCTTCCATTGCAGGCAAGTTCTGGTTATGCGAGTTTGCTGTCCTCACCACCCACTGAATCTTTACACAATCAACCTGTCCTGATTGCCCAGCCTGATCAAAGCTATAATTTGGCTCAGCCCATTAATTTTTCTGTGTCCTTACCGAATCCTAATGAGAAGAATCAGTGCTGGGGAGATGCTGTGGTGGGGGAGAAATCCATGGTGAGCACCCGGGCTCTTGGTGCTGACCATGAAGAACATGCTGCCTTGTCTGCAATTCCAGCCAGTACTGTCACTGGCTCGTCTTTGCCTAACAGTGTCACCCAGAACTGTGCCCCTCGAGGTTCTGGGTCTTCTGAAATGATTGCTAGCCAGCCTGCCAGTTGGTTGGTTCAACAGCTGTCCCCTCAGATTCCTCAAAGTCAGCACCCCAATGCAGAGAAGGGTCCTTCTGAGTTTGTTAATAGCCCTGCTAATGGAAGTGTGATGCTAGCTCCACCTGCAAACAGTGCTGTGATACCTAACAGTAATAAGGGGTATCACTCTAGAAACCCGGAAGAAGCCATCGGTGCCCTAGACTTCACATTGAGTAGAACTTTGGAAAATCCTGTGAGAATGTGTAGCCCATCTCATTCAAACAGCCCAGCTTCTCAGCAGCCTCTTGCCAATCATCCCAGACAATCTGGGCCTGGGCTGCATAACCAGGATCATTTCTACCAGCAGGTAACAAAAGATGCTCAGGATCACCGTAGCCTAGAAAGAGGCCAGTCAGAGCTGGTGCCTCCTCCGCCACAGAATTCTCCCCAACAAGTACCCCAAGCTGCGTGTCCAGAGCCTTCAAATCCAGAAAGCCCACCCACACAAGGACAGTCTGAAGGCTTGGTCCAGCCATCAGCAAGTCCAGCTCCAGTCAACACAGGCCAGCAGCCTCAGCCACCGCAGTCCTCCAGTGCATCGGTTACATCTACCAACTCCAACCAGGCAGCTGTGCGGTCAGAACAGCCATGGCTACACCCACCTCCCACTACTTTTGGCCCAGCACCTCAAGACTTGGCATCCTACTACTATTATAGACCCCCGTATGAAGCCTACCAGTCTCCGTACCCTTCACCGTACCCATCAGATCCTGGAGCAGCCTCTTTATACTACCAA
Seq A exon
GTAAGAGCACTGACATTTAACCATCTTGCTTTCCTCACTTCACCCCCTTTTTTCTCCTCTTAATGCTGTTTCTCTCAGTAATGACCTTTCTTTAGACCCATGTGGTCCCCCTGAAAAGAATCTTCCCTGCCCACCAACAAAGCTCTTCTTTCAGAGAGTCCTGTAGCATGTGGCATTGGTTGTATTGCCAGTGTGATACCGACCTCTGGCTGACAAAGTGCCATGCTTCCCAGAGCATTCTTGGGCTTGCTGCAGTTATAGTGCTAGACTGACCTCTTTAGGGAGGAGCCTAGTAGGTAGACTGTGTGCTGCTGTTTATTTGTTTGTGCTTCCAGACAGGTGTCACTGTGGGCCAAGTTAGATGTGAATTTAAAATCATTAACATTTTACTGGGCCTCACTTTTGTGTATGTGGTGGTTTTGGTTTGGCAGGCTTCATTTAGCCCTGGCTAGCCCCATATGTAGCTAAGGATAACCTTGAAGTCTTGAAGCCCTTATATTCCTGCCTCCACATCCTGAGTAGTGGAATTACCAGTATATGTCACCATATCCAGCTCTTTTATATATTTTAAAACATTTATTTATTAAGTGTATATATATATATATGTTTATGTATTTGCATGTGGGCGCACACACGAAGAGGTTGGAAGATAATTTTCAGGAATTAGTTTTCTTCCTCCACCATGTGGCTTCCAGGGATCAAACTCCAGTCAGCCATTTTGATGGCACCTTTCATCTGGTTTAAATAACAAAAACAACTTATGAAACTAACGACAGGTTATATTCCTAATAACTCTAGGAATCTTCTATGGCCTTCCTTGAGAATAAAGTCTTGAAGGAAGACTTTATTTAGATTGTCCATGTGCAGTAATGAGCAGAGGTGAGGGACAGTAAACCTCTCAGGTGCATGGCAGTGATCCTGCAGACTGGGAGGCCACTGCAGAGAGGGAGGCCACTGCTGGTTAGGTCCTGCTTAATCCTATAGTGGTGTGAAGTACCGTGCTTGATCGCTCTTAGCTTGTCCTTACCCCTGGCCCAGACTCATCACTATTCCAGTTAGAGGGATTGTATTGCTGAAAGGTGAAAGACCCAAGTCCTCCAGTGTTTGGGGCCAGGCGGTGTTGGATTCTTGTGTGGCCTGAGAGCAGTTGGCACTGTGTCAGAAGGAACCTTAGAAACAGTTGTAGCAGCTAGGCCAGAGCTGCCGTGGCCGTAGGCCTGTGCCTCCCTTCCTATCAGCCTAGTATAGCATCAGGTGTACATGTGTGAGCAGTTACAAATCTTCCCTAAAGACTAGTAAGTTCTAGACTTTAGAAGAGGAGCCATAGCTATTCTTTCTGTAGGAGGCATTTCCAGTTTGTGGCCTGATGCTGTGCTACAGAGTGTGGAGCCACAGATGGGCTGCAGGCTCCTTCAGAATCCCAAGCCTTACAGCTCTCCTCTGAGTGTGCATCCGTGCCTCGTCATTGCCAAGGTTCTCAGGAGTCAGAAGAGCCATTTCCCACGATTTCATATTACCTGTCAGCTGATGGCAGAGCTGAGGCTTTTGCCTGTATCACTTCATTTCTTTTTAGATCTCCACATGTCCTACGTAGCCCTTTTTCCAGAGATAGGGCAGAGCCATGGTTTTGTTACAATGGGGCTGAAATCCTCATCAGAATAAGATACAATTTCCTTTTAAAGCCAGGTATGGTGGTTCAGGCTGTAATTCTAACACCCGGGAGGCTGATAAAGGTAGATTCTACAAGTTCAAGGCCACTGTGAGCTTCATAGTGAGTTTTAGGCCAACGTAGGCTAAGTGTGAGACTGCTGCAAAACAGCAGCAACAGACAAACAAAGCAAAGCACCCCTAGATTTGAAAACAGTGACCAATGCTGTCTTTCTTCGTGAGGCTTTTGGGGCTGACTCACATGGGTCCTTGGCCCTGTTGCTTTACTGAGGGGTGGTGCTCTATTTATGTTGTTCAGACTATCATCTCCATGTTTAAGACTGCAGGGGGAAGCTTGCCCTGGAGGGCCTTAGGGAGATGCTGCCGGCTGCCCTTAATGTGGACTATGCTTTGGGCTTTGTTTCCATGGGAGAATCCTATCCACAATACTGCTCTTCGACAGTGGGCATCTGCAGCACCTAGAGCTAATTCTGTCACGAAATGTCTGCTCTCCATGGAGTCTAACAATGCCCCAAACTTCTTTCCACAG
Seq C2 exon
GATATCTATGGCCTGTATGAGCCTCGTTACAGACCCTATGACAGCTCGGCATCTGCTTATGCCGAGAACCACCGCTACTCTGAACCTGAGCGGCCCAGCTCCCGTGCAAGTCACTATTCTGACCAGCTCACTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.949 A=NA C2=0.663
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]