RnoINT0132300 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3856218-3859962:-
Coord C1 exon
chr3:3859885-3859962
Coord A exon
chr3:3857744-3859884
Coord C2 exon
chr3:3856218-3857743
Length
2141 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGCTGTTCCTTTTGTTCCAGGCG
3' ss Score
9.88
Exon sequences
Seq C1 exon
GCTCCTGGAGACCACTGTCCTGCAGGGGCCACTCCTGGTGGGTCTGTGCCCTTTTACAACCCTGCGCAGTTGGTGCAG
Seq A exon
GTGAGTGACCTTTCCCTGTGTTCCCACAGCCCCAGCTTGCCTGCTCACTGAGGCTCCTTTGTTCCCTGGTTGTTCATTTGGGGGTTTTGTTTTGTTTTCTTACTTGTTTTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTGAGACAGGGTTTCTCTGTGTAGCCCCAGCAGTCCTAGAACTCACTCTGTAGGTCTCTCACTTGACTTAATCTGCATCCTCTGTTTGTCTCGTAGTCCTCTCACTGCTTTGGGCTCTTCCATTCAGGGCTTTTGTTTTTGTTACTTGCCATGACTAAGGGTTGGCTCCCACTATTGCCAACCTCCCATGCCTGCTCAGGATGCATAGCTTCCCTGAGTTAGCCATACATCACAGGCTCCCCACCCAGTCTTCTCCCTCCTGCCGCCGCCTCCTTCTCTTCTCCTTAAGAGCAGCTCTACCAAGGAGAGCCCTGGTTTGGGATTTTTCATTGTTTCATTCCTGATGAATCCCTCCGTCTGGGTGACTTGGGGCCTCAGCACTTGACTCTTTTTTTTTTTTAAATATTTATTATATATACATATATACACACACACACACACACATATATATATGTATATATATATATATATATATGTGATATATATATGTACACTGTAGCTGTTCAGACACACCAGAAGAGGGCATCAGATCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCGGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCAGCACTTGACTCTTAAAGACCCTTTGGGTTGAGTGTTTGCTGGGTGCAGTTTTCAGATAGGAGTTTTATTCAGATCAGAAGTGCCCACTCCAGGTCTTCCCTCCGTCTCTGAAGACTGGGATGGCATCTTTGCTCAAGGATCTGTACACCCATTCCCCCAATCGTGCTCTTGTGTACCTGTGCCCAGGAGAGGCTGGGATGTGCTGCATAATTTCTCTCCTTCTCTCATCTTTTGGAGAAGTGTAGTCTGGCTTCTGTGGGGGCGGGATCTGTGGAGGGCATGAGCTCTAGGCAAGCATCTTTATTTTGGGGGACAGGGACTTAAACCAGACACTTAAACATGCTAGCAAGTACTCCACAGATTGAGATGCGGCCCTGGGGCAAGCAGCATGTGTGGGCTTGTTGTGTTTGGTTTTGTTTTTAATCAAAGGACAAGCAAGCAAAGTTTATTTATTTAAATTTTTATTTTATGTGTATGGCTATTTTGCTGCATATATAGACATACCATTTGCATACCTAGTGCCTACAGAGACCAAGAGAAGGCATCAGATCTCCTGGAAGTAGAGTTTACAGATGGTTGTGAGTCATCTTGTGGATGCTGGGAATTGAACCCAGGTGATCTAGAGGAGTAGTAATTGTTTGTTTATTTTTCATATATGCCATACAAAGTCTATGGAGTAATAAAATAGTTCTTTGAAGCCAGGAAGAGCCAAAATGAGTTATCTGGGCAGGTATCTTAACATTCTGAGTGTGATGTTCTCAGCCCACTCTAACAGGGACCTTGCCCTCAGCTGTGCTAGACCCAGCCCTGGTTCCTCTCTGTCTAGTCCTCTTGAAGGTCTTGGGATCCTGTGCTAGGCTCTGAGCAGAAGAGGCTGCTGCCAGCGTCTTTGTCCATATTTTCAACTATAAGATCTTATTTTTTTTCGACCTTGTAGTTGAATAGTTCTGACAGATTTCTTGGACTTGATCCCAGTAAGGTTTAGTGAGGGAGGAAGAATATATGCAGTGCTTTCTCGTGGCATGCGGCATCCCTGTGCTTTCAGGAACAGAAAACCATAGGCCACTAACCACCCTTGGACTCAATGAACCCTTAGCGGGCCCAGCTCTGTAGCACTAATTCAGCTCTTGTGACCTTGACAGAATTGGCAGAACAAAAATAAATCATGTCTGCAGTGCTGTGGCCTAGCAAACGCTGAGCAGCAGAAACTTGGCCCCTACAGAAGGTCTTGCACTTGAAGCTAACATCTAAGAGTTTGCCCATTTGTCAGTCATCTGCAGATTTACCCTGTAGACCCATCCTGCTAAACATTCTCTGGGCATGAACACATGTAGGTCATTGCTGTTCCTTTTGTTCCAG
Seq C2 exon
GCGTCTGTCACCTCGGGGACTTCAAGGCCAGGAAGGATTGGCCAAAGAAAATATGCGGCACTGAACTAGGATTGCTGCTGGATTCTTACTTGGCACCCTGAGAGGATTCGATAACTGTTCTTCAACAAGAACCAAACTAGCTGCCTCAGGTCCTGCGGATCCCAGATGGGCGTGGCAGCACTCAGAGCCGGTCATACTGTGTGTCTCCCTCCTTGCAGCCTATGTATATGAATTATTGAAAAATCAATTTCAAGGTTTCTTTCAGATGCTGGATAGAATGAATCTAATTCAAAGTCTTTTATGTAAAAGAACGGTGTTTCTTTTTTAGTTACTTTAGACAAATTAAGGTTTGAGTCACTTGAGAAAACCCCTGAAGAGAGGCTAGACAGGGCTTCACTACAGGAGAGCACAGTTCCTTGGAAACCAGGGCCTCTCTCACCTGAGAAATGGTGCAGACCAACCAGGGCCCCTTAGGTTGCTGAGAGAAGAGTGACTACTTGCCTGGAGAGGACTGACTACTGAGCTGCCTGGCCTAAGAGGAGCCCCAAGCTGCAGTGGGCAACTATGCCCTGTCCTGTGAACCAGGGAATACATGCCAGCTCCTCTAAGGGCACCAGATGGCCAAGGCTCACAGACTGGGAGGGAAGTGGTTACAAGGGCATGTCTCTCAGAGAATTCCCAGCCTCACTCCATTTTCTGTGGCCTGATTAGAGCTGGGTGACTTTTACTGCTCAGAGCTTCCGGTCATGGACCAGTCACTGGGCAGAGTTCCAGGGAGCTGACATGCTAAAGCTGCTGATCTGATTAACCAGGTCAAAAACTGGATGCATGCTGCAAAGTCCTGCCCTTCTAGCCAAGGGTTTGTGTGAAGCCTTCTAGCTGACTCATGTCACCTGCAGACAGCACTTAGAGACTTGGTGGTATCTTGGAGTGGCTTACGGTGTCCTAGCAGATACTCTGGAACCTTGCATCTCTACCCCAAAGCCCACCAAGGACCTTGAGCAGCTACTCACTGACTCACCCATATCACTTCAAGGAGCTGCCACCACGTTCAAACTCAGAGCTTTAAGGCTTCACTGACTGTTCCTAAAACTATCCTTACACTCTAAAGAGGAGGGGAAAGAGATTTAAAATATTTATACAAATCAGCAGGTAATTTGGGTAGAAAACATAAATGGTTTGTTATTAAATTTAGAAATTGTAGCACATGGAATTATACAGCCCTTCCTGGTTTTCTGGTTCCCCACATCATCTAGGGAAGGAAGACTCACAGAATGGTTTCCAGAATGTTCCGTAGATGAGTGTACTTGGAGCCTCCTGTTCCTGTCATTAAGAAAGGCCTGTCCCTGGGTCATTAGCAACGTGTTTCCTTGCTGGGACCAGGCAGGACCCTTGCCTCTGGTGCAACCTTGCCCAGGCTCTGTGTTGACTGCCAACCACTTTTGATTCAAGAAGCTTCTTCCCTGGGAGCTGCTATTTTTCCAAAATTCACATTGTTAAATAAAATATTTTGGGCTCTCGAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.985
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]