RnoINT0095095 @ rn6
Intron Retention
Gene
ENSRNOG00000037376 | Mterf4
Description
mitochondrial transcription termination factor 4 [Source:RGD Symbol;Acc:1562440]
Coordinates
chr9:100440486-100442219:-
Coord C1 exon
chr9:100442035-100442219
Coord A exon
chr9:100441079-100442034
Coord C2 exon
chr9:100440486-100441078
Length
956 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AGGTGTTTGTTGTCTTTCAGTAT
3' ss Score
8.03
Exon sequences
Seq C1 exon
GGAAACTGAAGCGGGTGCTTTCTGTTTGCCCTAAGGTTTTCACCATGCGTCAGCAGGACATTGATAATATTGTAAAAGTCCTCAAGGAGAAGTGCTTGTTCACAGTACAGCACATCACTGACATTCTGCACAGATGCCCAGCTGTTTTGCAGGAGGACCCCAGTGAGCTAGAATACAAATTCCAG
Seq A exon
GTGAGAGTAAGCGATTGGGCTGGTGATGGCAGAGTTTTCAGGTGTTTTTAGTTCAGTAGGGTCAGCTGGTGGATAAGAAGCCTCTGAGTAAAAAACATCTGTTCTAGACTAATACAGCTCAGTTCTCCTCTCCTCTGTCCAATACAAGCCTGTTCTCTAGCTCTTCTTCCTTGACAGTGAGTGGCCTGGTGCATTCCAAGTCCAAGTAGGTAAAATTTTACAACTCTTGGAATGTCAGTTTGTGTGAGGGATTTGGAAATTGTGACAGTTGCTCTAACAGTTTAGTAACAGATGTAACAGCACTTGTGCAGCTGGGTGGTGGTGACGGACTCCTTTCAGCTTAGCAGAGGCGGGTGGATCTCTGCGTTTGAGGTCAGCCCGGTCTACACAGTGAGTTCCAGGACAGCCAAGGCTGTGTAGAGACCTTGACTCTACAAACCAACCAAACAAGCAAATGCAGCTGATCTGAGGACCTGAGTTCAGATCCCCAGAACCCACCTAAGAAGCCCAGTGCCTCAGCCACCCCTATGGGGAGATGGGAGGTAGAGACAGGGAATCCTTGGAGGTTTGTGAACCAGTTAGCCTAGCCTTTGACCTCCAGAGCATGCTGTACTATACTCAAATAAAACAAACTTCATGCTCACACATTCTTTTAAAGATTCCTAGGTATGTTATGATTTCTTTGGGTCCGTTTTTTCCCACTCATGATTTCTGTTGCCCTATTTAAAGAAAAGGATATCCCTCTATGCCCCATTGTTTTCTGCTGCATTGTTCTCGGCCTGAATTTGGAAATGCTTTGAAAACTAGATTTCAAACAAATATGAGTCTTCTACAGTGGTTATTCTACCATTTCTAATTAGGCGATTAATGATTTTGGACTACAGTTTGTTTTGAGTTGGAATGACAGGCTTTAGGGTTCTATAAGTGGATTCCTAAAGGTGTTTGTTGTCTTTCAG
Seq C2 exon
TATGCATATTTCAGGATGGGACTGACACATCTAGACATCGTCAGGACCGATTTCCTACAGTATTCAATAGCCAAGGTCAAGCAGAGACACATTTACTTGGAGCGCCTTGGACGGTACCAAACCCCTGATAAGAAGGGGCAGACACAGATCCCTAATCCCTCACTGAAGAACATTCTCAGAGTTTCTGAAGCTGAGTTTTTGGCCAGGACAGCCTGTTCCTCTGCTGAGGAGTTTGAAGTTTTTAAAAAGCTCTTGGATCAAGAGGAGGAGGAGTCTGAGAGCCATATGTCTGAGGAGGAGGAGGAGGAAGAGGAAGAAGAGGAGGAGGAGCTGCCGTGACAGAGCACTGGGATGTCAGAGGTCATTCTCATGTTCCTGAAGCACTGGGGAGCTTCACCTGGATCTTCTCAAGCACTTTTGATCCCAACACTGTTTGATAAAGGAAAAAACAAAAAAACAAAACAAAACAAAAAAAACCCCAGCCAACCTGCAGTGATCTACTGGAGATTCAGGTAAATCCACCAAAGCAAATGAGGGGCTTTTTGAGTTCTGTGGGGGGCCCTACTCCATCCTAAATAAAGGACTCAGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000037376:ENSRNOT00000056558:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.304
Domain overlap (PFAM):
C1:
PF025369=mTERF=FE(25.4=100)
A:
NA
C2:
PF025369=mTERF=PD(27.9=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACCCCAGTGAGCTAGAA
R:
TTCCTCCTCCTCCTCCTCAGA
Band lengths:
342-1298
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]