RnoINT0154653 @ rn6
Intron Retention
Gene
ENSRNOG00000009369 | Tor4a
Description
torsin family 4, member A [Source:RGD Symbol;Acc:1308019]
Coordinates
chr3:2407857-2411544:-
Coord C1 exon
chr3:2411341-2411544
Coord A exon
chr3:2410663-2411340
Coord C2 exon
chr3:2407857-2410662
Length
678 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TTCCCATTTTCCTATTGCAGGGA
3' ss Score
10.93
Exon sequences
Seq C1 exon
GCGGAAACCTCCCCAGAGCTTCCTCTGCTCCTGTCCCTGGGGACCTGCAGGAGTCGCTGCCCCTTCAAGCCTGCGTTGGACCAGCCAGACCCTGGCCCACCCACCTAACCCTTTGGGTGGAAGACTAGCATTTCCTGTTTCCTGAGTTGCTGGCTACTGGCCTTGGAAGGGAGTGGCCGAGCTGGGGAGCCCGAGCAGCCGCAG
Seq A exon
GTAGGGATGATATGGAGAAATCCAGGCCAGCCTCCTTACAGTCAAGGCTCTAGTCCTTCCTGGCTCCTTTTGTTCATCTTCTGCTCTTGTGTTCTCTGGGAGGATGCTGAGGGGCCCCAGATTTGGGCCTGGATGGTGGCTAAGGCTGGCAGTGGATTGAAAGGTCTAGGCTGTGACTAGGGACAGTGATAGAGCCCATCCTCAAAAACATGACAGTTGGTCTGCACATTCCTTTCCGCCAACTGTCCTAAGTATGGGGAGAGTCTCAACTCTTAGGGGTACCTAGTCCTCTGGGACAAGGGGCCTACTTGGGACCTGTAAAGCCTTTTGACAGTCTGATAGGTGCTGGGTGTGTTGTGTGCAGGGTTCAATTTGACTATTCTGTATCCCTAATCAGTGACATTATTACAACGAACCTTCTGTTTATTCCTCCAAGGGGGAAGTCAACAATTTGATAAATTATACACCTCACCCCACCCCCGCACTTCCTCAAGGCCTAGTCCTTTTCTGAGAGGACCCAAGAGATTTGCATGCGTTGGGGCCCTCCTGCAGAGAGCTGGACTTCCTGGTTGGTGGAGCTTGGGGAGGCGGGGCTAGTCTTTGGCCGTAAAACTCCTTAAGGAACTCCCAGAGGGTAAGATCCGGGACTCAGGAAGTCTTCCCATTTTCCTATTGCAG
Seq C2 exon
GGAGGGGAACTGCATGCACAGCACAGGTCCTGAACCATGGACCGCGGCCATCCTAGCCTAGAGCCCCAGGCCAAGGGGCCATGTGTGATCGCGCCAGTGCGCGCCGTGCTCCGTCTGCGCCGCCGAGTCTGCGTCTTGCGCAAGAGGCGCCTCTTGCAGACCGGCACTGAGCCGAGCGTTGGGACGGGGACACTCGGGTCCAGCGCCAGCTTGGGGACTCTGCGTGCTGACCTAGACCAACCTAAATTCTTCACCTTCGACAGCCTGACGGAGCTGTCTTCTAGGACACCCCGCAAGAGGCGCAGGCGTAGTCGGGTAGTGCTCTACCCGGAAACCTCACGGAAGTGTCGACCCCGTACAGAGCGGCAGAGTCGTGCGCAGCGTTGCCTGCTGCTTCTTGTAGCCATTGTAGGGTTCCAGGTTCTCAACGCCATTGAGAATCTGGACGATAATGCACAACGTTACGACCTCGACGGGCTGGAGAAGGCGCTGCAGCGTTCTGTGTTTGGCCAGCCGGCTGCTGTGAGCCGCATCATGGCCCTGCTGCGAGACTACCTGGCTACCCATGTGCACAGTCACCCCTTGCTCCTGGCACTGCACGGGCCCAGTGGTGTAGGCAAGAGTCACGTGGGGCGCCTGCTGGCTCGCCACTTCCGTGCAGTGCTTGAGGATGGTGCTTTGGTTCTGCAGTACCATGCACGACATCACTGTCCAGAGCTACGCCCGGTTCAGGACTGCCGGAAGGAGCTGGCACAGCGTGTGGCAGATGTGGTAGCACAGGCTGAGGCCGAGGAGAAGACCCCACTCTTGGTTCTGGATGAGGCTGAACTCTTACCACCTGCGCTGCTGGATGAGCTGCACGACCTCCTGCAGCCACAGCGCTCTCACCATTTCCACAATGCTATCTATGTACTCCTAAGTGGCGCTGGCGGTATAGAGATCACACACTTTGTGCTGCAGAATGCGTCACGGATGTTGCCCTCACTCCGCCACAGTGTAGGCCGTACTCAGACTGAGGAATCTCCAGCCTTGGAAGAGTTACAAACCAGTCTTCGAGAGCTCCTGGCCCGTGAACACCCTCTGTGGCACACTGCGGCCATCGTGCCTTTCCTGCTACTGGACAAGCCGGATGTAGTCAACTGCTTCAGAGAGGAGATGGCCGGGGAGGGCTTTTTTCCTGAGCAGGCGCAGGCAGAACATCTGGCGGAGCAGCTCAGCTACTACCATGTTGCTGGACATGAATTCGCCATCACTGGCTGCAAGCAGGTAGTAGCTAAGGTGAACCTCTTGCAACACAAGCCTGCACATGCCGGACACGAGTCAGTGGGCCCAGGCGTTTGAACTGTTGAAGAAAACAGGAAGGATGTCAGGTGATTTGTGGCCCCTAAGCTGGTTCACCCCAGGAGCTATGGAGGCTGATGCAGTGCCTCAGCTCCTCTTCTTCTTCACCCCTGAGGTCACCAGAAAAGCAGCTACCTTCCTGTATGGAGTCTCCCCCACCCCCCAGCTCCCACTATGTCTCTCATGTCCCAGGAGCGTGCGATAGGACCTCCATAACCCTAGGAGGTAGCCAGTGTGTGCTTATGGTACAGTTGTCTCAGTGTGTGGTTGGGGTAGGATCGTGGTCCACTGGAACTTGCGGCAGCCTCCATGCCTCTCACAGACTCCCAGCCACCCCTTGAATGCCTCTTTAGCTTAGAGCCCAGAGGTGGAGAATGCTTCTTTAGGCCTGCCTCAGAGGGCCGTGGAGCTGGTAGAAGACTCCAAGCCAGTGAGTAGATCCAGTGGAATTCTTCAAATGCAGTGGAAGCTAAGAGGAGACCCATCCTCTTGAGGCTGGCTGTCCGTTTTCCCCAGAGAGACATGTAGAATGGTTTTGGAATCAGTTACAAGGTTCAGAGTTCTGCTTACCACAAGAGGTTAGGAGGAACCTCTACCTCCAGGGAGGTGATGTGTCTCCACCCCCCCTGGGGAGACTTCCTGGGAAACCACTCAAAGTCAGGTTTCCCAAGAAAGGCTCACTGGACTCCAGTCTGTCTTACTGCTGAAGAACTTGTACTGGCCCCTTCCAGCCCCTGGCTCTGGAGGGACAGCAGTGGAAGTGAACCATACCTCGAGCCTTGCTGGCTGTTTATAGGAAGCAGGAAGCAAGCATGAGACCCAGTGGGGTGGGGTCAGATGGGCAGGTCCCAAAGCCTCTACCTGCATGTGCTGTGCCGGACGTGAAGTCCTCTTCCCTAGCAGTGTAACTGTCTGGTTACCACAGTTACGTGGGGTGAGGGTCCCTGTAGCCTTTGGCGTCCTAGGTTCAACCCCTGTCTCCCATTTGTGTGGAATTGGCTAGGCATGAGGTTTCTTAGTACTCCGGCCATGTCCGTGCTGCCACCTGGTGGCTGCACCCAGACTTTGCCTTGAATGCTCATCATTCTGGGTTAGAAAGTGAGGCTTGAGGGCACACAGCAGGTGGTGACTAGACGAGATTAGAGAGGAGGAGCCCCTCAATGGGGGTGCTGTGTCCTCCCCTACACTAGGGGAGACCTGCTGCAAAAGCACACAGGTTCAGGCTTCTGTACAGGGCATTGATTTAGTGAGGATCCAAACCCATGCCACGTTGTTTTCTCTTTATTTATTTATAAAACTGTGCACTTCTAAAATAATTTCTTGGAGGCTAATTTCTGGTCTAAAGAGGCCTGTACACTCAGCACTGAGCAGGTTACATCATGCCCATGAATAAACCATAGTTCTAAGCTACCCTTCTATTGTCTTCTTTTCCTTTTCTGTTTGTCTGTGAATTGAGAAGGGGGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009369:ENSRNOT00000012406:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF063096=Torsin=WD(100=27.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACTGGCCTTGGAAGGGAGT
R:
CTTGCGGGGTGTCCTAGAAGA
Band lengths:
348-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]