DreINT0166347 @ danRer10
Intron Retention
Gene
ENSDARG00000001557 | tomm34
Description
translocase of outer mitochondrial membrane 34 [Source:ZFIN;Acc:ZDB-GENE-030131-2081]
Coordinates
chr6:52232106-52234318:-
Coord C1 exon
chr6:52234182-52234318
Coord A exon
chr6:52232206-52234181
Coord C2 exon
chr6:52232106-52232205
Length
1976 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TGTAACCATTCTGTTCGCAGGTC
3' ss Score
10.5
Exon sequences
Seq C1 exon
TGTTAACATGCCTCAGAAGCGGCGCACGCAGTCGTGGACGGATCTCAAACAAGCCGGTAACGAGTGCTTCAAAGCGGGTCAGTATGGAGAAGCGGTGACCCTCTACAGCCAGGCCATCCAGCAGCTGGAGAAATCTG
Seq A exon
GTAAGAGGTCTCAGATATTACATATATTGCTTGGGTGAATATCATCCTTACAGTATTACCTTTTAGATAAACATGTTTTTGTACATCTGATAGTACCATAGTATTCTAGCAGTAGCACCTAGACTTTTAATGTCTCATTGTATTTGTGTAACTGGCAGTATAATATAAACACCATGGTAAATTAATTTGAGTAGTGTATTATCTCAGAGGTTTCAAACTGGGGCCCAGGGACATTGATGTATAGATGGTTTTATATTGACACAATCTGACTTCCTCCGTTATAATATAATTTCAGAAAATTCATTCATTCATTTATTTTCTTCTCGGCTTAGTCCCTTCATTAATCCAGGGTCGCCACAGCGGAATGAATCGCCAACTTATCCAGCACATTTTTACACAGCGGATTGCCTTCCAGCCGCAACCCATCTCTGGGAAACATCCATACACACTCAAAACACTCACTCACAATTTAGCCTACCCAGTTCACCTGTACCATATGTCTTTGGACTGTGTGGAAAACCCACGCGAACACATGGAGAACATGCAAACTCCACACAGAAATGCCCACTAACCGAGCAGAGGCTCGAATCGGCGACCTTCTTGCTGTGAGGTGACAGCACTACCTACTGCGGCACTGCGTCGCCCTATTTAAGAAAATTATTCTTTGCAAATTCTTAATAATTAAACATATCAGCAGCCAACGAATATCAATGAACAACATTGTTCACATTCAAATAAACACTGTGATGTGATTTCAGAAAGAACATTCAAAATACTATGGTAAACAATATAGGGAGGCCTGTCACATGCTGTCACTGAACCAATGTGCAAATATAAAACCAACTTTAGCTTGATAAAGAAATCTGATGGACCTTTAAAAATATCTAGAAGTTTCAATAAATGATATATCATAATTTCTATTGAGGGTTTAACAAATACAATTTATATATATATATATAACTTTTTAGTTTAAGAAAACAATTAATTTAAATGTAGAGATTGCATTTAGATGTAAACGTGGGAAGCAAGATTGAGTGATATAAGAAAAAGACAGCAAAAAAAAGAAAATAATTTAAAAAAAGGGTGCATATTAGGATTATTGGGCCCCGTCGATATAATTGCTTAGGGCCCCCAAATAACTAAATCTGCCCCTGGCTTGGGTGACTACCATCCTTACAGTTTGACCTCTTTGATATACATGTTTTTGTACATTTGATAGTACCATAGTATTCTGGCATTAGCACCCAAACTAAATCTTTCACTGTGTTTATATCACTAGAAGTATAATATAAACAACATGGTAAATTAATTTCAGTACTGTGTATTATCTCAGAGGTTTTCTGAGTATTCACACCGCACAGACAAAAAGGGTGTATTAGCAGGACCCTGAGAGGCAAAGTTTAGAGACAAATTATGAATAAATGAACCAAAATAAACTAGGATTAAAACAGAGGTTTATGCCACGTTGTGTTTGGGACAGGAATTACTAAAGCAGGTTTGACATCTTCATAAAAGTCTTCACAAGTTGTCAACTGATAAAAACACCATCATATGTTGGCAGTCTTTTGTATGTGTGTGTTTAAATAGACGTCACATAAGGAAATAATCTAAAAATTAAAGTCTGTAACCTCAAAGTAAACCAGGACTAAATGTATTATTGTCTCATTTGTCTGGACCAAATGACCCAAGAGAACTAAACTACAAATGAGAACACATCCTAAAAGAATAAAACAAACATTATAATCCTACAGAACCTTAGAACAGTGACTGAATTTGATGGTAATGTCATGGTACTATCCTATGTTATTATACTATAAAAGGAGATGGCTTATTAATGTGTTAAGTGACAATAGGGTTCTCTTACCAGATGGAATACAGTTTAAAATGGTACATCAGAATGGATAAGATGTAAAGGATTCATTGATACCACAGTAAATAAAGAGACATCCATGCATTTGTAACCATTCTGTTCGCAG
Seq C2 exon
GTCAGAAGAAAACTGAAGATCTGGGTATTTTGTACTCAAACAGGGCCGCCAGTTACCTGAAAGATGGAAACTGCAATGAATGCATTAAAGACTGCACGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001557:ENSDART00000001803:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(46.7=79.5)
A:
NA
C2:
PF134141=TPR_11=FE(44.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAACATGCCTCAGAAGCGGC
R:
GCCGTGCAGTCTTTAATGCAT
Band lengths:
235-2211
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]