RnoINT0132293 @ rn6
Intron Retention
Gene
ENSRNOG00000019122 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:RGD Symbol;Acc:2322350]
Coordinates
chr3:3863584-3866645:-
Coord C1 exon
chr3:3866496-3866645
Coord A exon
chr3:3863662-3866495
Coord C2 exon
chr3:3863584-3863661
Length
2834 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TTTCTGCTGATTTTATTTAGACC
3' ss Score
7.03
Exon sequences
Seq C1 exon
GGCTCCTCTAGAACAGCACAGGACTCGGAAACCTCCCCAGTGTGGGATCTTGGCAGCTCCAGTCTGACACGTGCCCCATCTTTGACACCTGATTCTGAAGGGAAGAAACCTGCACAAGCTGTCAAAAAGGAGCCCAAGGAGCCCAAGAAG
Seq A exon
GTATAGCCCAGTCCTGCAGAGGTGGGCGAATACAGGAGGGAGGCTCAGCACCAGAAGCAGCTTTCCTTGGGAATTAGAGGCAAAGAAGAGACCATTCATTTGTTATAATCAAACATTCGTAAACTATTTTCCCAAGATGTAACATACATGAAATTGAGTGTGTAAAGCATGTCACAACTAGGCAAGTCTGTCTGTCTGTCCGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGTGCACATGCGTGTGCGCACCCAGATTGGTGAGGAAATACCCAGGCTTCCTAGAGACTCACTCATAGCCAGTCCATCACAGACAAGCCCCAGTGCAGCCAGAGTAGGGCACATGTATCTCCTGATAGCAGCCAAGCTGAGCACCTTGGCACAAGCTTAGCCCTCAGTGCTCAGTGCTCTTGTACCTGTTGTGACCTTTCTGCATTCTGAGCTGTTGTTTCAGTGATGTGTGAGTCCTTGCATGGTGGCTGCAGGTCCTTCATTGGATGAGTGTGTGGTACACATCCTGTCTCAATCTGCAGACCAGCTTTTTGTTCTTGATGACATTTTAAGTTCTTCAATTTTAAAAAAAAAATTATGTAATTTTAAATTACACGTGCATGTGTGTATCTGTATGGGTGCCTGCAGAGACAGAGAGGGCCCTGGAGCTACAGGTAAGGAGGTTGTGAGTTGCCCAAAGTGTGTGCTGAGAACCAAATCTTGTCCTCTGGCAGAGCGGTCTATGCTCTTAATCACGGAACCATCTCTCTCCCGTAGTTCATCATTTTAAGAAAGTTCAGCTTATCAGATACCCTTCATGATAATTTTTTGAAAATACACACAAGTTTAATTTTTAAAAACATATGAAGGCTGAGGATAAAGTTCAGGTGTACAGCACAATGCCTGGGGTTCAGCCCTAGTTAGTACAGGGTAAACAAAACAAAACAAAAAAGAAGCCCAAGATAATTTTAGGGGCTAGAGAGGCAACTCAATCGTTAATACATGGACTGTTCTTGTACCGGAGATAAAGTTTTTTATTGATTCTTTGTGAGTTTCACATCATGTCTACCAGCCCCCTTATGCCTGCTTGCTGCCCTTGCATTCCCTTCGCCAACATAAAAACCACACAAACAGAACAAGCAGAACAAAGTGTAGAAAGCATCTGGTCATGGACAGATGTCCCACAGTAAACCCCTCTGTCCTCACATCTTCACTTTTGAATGTTCATTGAATGAGTCATTGTTCTGGTTCAAGGTTTCTGGCTTTTGTGACACTGTTGATATTGGCTCCTCATTGAGACTCCTCCCAGTTATCCTGTTGTTGCACTGTGTCTTGGAGATCTTGCAGCTTTGGATCAGCAGAACTAACCCTTTCACTGGCCCCAACAGTTGATGTAGATTTTGGGATTGGCCAACTCAGAGCCCTGGATGGGCCTGGGTGGCAGCTGAGGTGCCCTGCCCACTGGCTCTCCCTCACCAACAACACCAGGGCCAGCTCTTCAGCTCAGTGCTGCTAGACCTCCCAGTGCCGCCATCCACAGGAGGCAGGGCCAGCTCTCCCGCTCTCCTGCCCTGGGGGCCAGCTCACCCACACCCACACTTCCAGAGCCAGCACCACTGTGCTGCCCAGTCGAGGTGCGGAGCCTGCTCTCCCAAGTCCTGTAGCTGGCAAGGAGCTGGGTGAGCTCTCCTGCTCTGACACTGAGGACATTTTAAAAAGGAGGCCATGCCTGGTGTGGCGATGCATGCCTTTAATCCAAGCACTGTGGAGGCAGAGACAAGCTAATCTCTATAAATTTGAGACCAGTCTGTTCTGCTAGGAAGTTTCCAGAATTACGTAGTAAGATCCTGTCTAAAAAATAAAAAAGAGACCAAAGGTGATTGACTGAATGAATATCATAGGCATCAGAGCCTCCCGGAGTCACTGTTTCTCACCTGGGTGCCTGCCATTCAGGGGCCAGCTAGTAATAACCCCTGGGCTTTCCATCCAAACTGTGGTTCCTGAATGATACACCTCTACCATCTTATCATAAAGACTCTGCAGGACCCAGAACACCCAGGAAAGCTCCAACTATAATTCTGATATCTTCAAGGGGCTAGCTGATGGTGGTGTGTGATTTATGCCAACACTCAGGAGGCAGAGGCAGGCAGATCTCTGTGAGTTCAAGGCCAACCTGGCCTATAGAGTGAGTTCCAAGATAGCCAGGGCTACATAGAGAAATCCTGTCTCAAAAAAATTGTGTGTGTGTGTGTGTGTGTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTGTGTGTGTTTTTCAGGACATCCAGGGAGCAGGAAGTAGGAGACCAAGTAGACAAACTCACATCTCTTCCTCACCCAGGGTCCCTTGACATGTATGGCAGGCCGCTCTCAACTACCTATAACCCCAGTTCTAGGGGTTCCAATGCCTCTGGCACCTACTCATGTGCACATACCCAACACATACAGATTTTTTTTAAGCCAGGGGGCGGTGGCTCAGGTCTTTAATCCCAGCACTTGGGAGGCTGAAGCAGGCAGATCTCAATGAGTTTGAGACCAGCCTAGTCTATATATTTTCAGGTACATTCAAACCCCTTTGACTTGTGTGGTCAAAGCATCCAGATGAGCTCACCCTCTGTGTCCCATGACGGTTGACTGCTCAGCCCCGTCCTCCACCCACATCCCACCTCTGGACACAATGCTTTCCATTTCCTGCTGGGCTCCTCTCACTGGGAAGTGGCCTCATGTTTTTCTGCTGATTTTATTTAG
Seq C2 exon
ACCGAGTCCTGGTTCTCTCGCTGGCTGCCTGGGAAGAAAAGGACAGAAGCTTATCTACCAGATGACAAGAACAAATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019122:ENSRNOT00000064083:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.923
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]