RnoINT0049236 @ rn6
Intron Retention
Gene
ENSRNOG00000004171 | Dnah9
Description
dynein, axonemal, heavy chain 9 [Source:RGD Symbol;Acc:621799]
Coordinates
chr10:52658952-52659937:-
Coord C1 exon
chr10:52659811-52659937
Coord A exon
chr10:52659208-52659810
Coord C2 exon
chr10:52658952-52659207
Length
603 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GTGTTTGCCTCTTTCCTCAGCTG
3' ss Score
9.52
Exon sequences
Seq C1 exon
GTATGAGAGAAGACTTTATGAGGACTGGTGTCAGACAGTGTCTGAGAAGTCACAGCGCAATCTCTCCCTACCACTTTTGCATCGTGACCCCATCACAAAGCAGCTCTCTGTCAACTTTAACTCACAG
Seq A exon
GTCAGCTGGGTGGCAGTAACTTCCACTGGTGTCCCAGAAATATCCACTGAACTTCACTGATTTCAAGGGTCAAGAAATTTTTTTTCATATACTACTTGAAACAGTTTATACTTTTCACTCTCTTGTGGGGGGATGAAACTCAGGTCGGACTACTTTCTTATGGTATTCATGTCCATGATTTCTCTAGGCTTGATCAATGGGTTTGATTTTGTACGATAGGGAATCAAACACGAGTTGCACAATGTCAGGAACACTTCCTCAAAATACATTGCTAAATGACTTTGCCATGGTACAAGCATCAGAAGGTGTTGATGAAACAACCACGGTGTTACTACAAAATTTGAACTTATGGGGCAGGAGCTCCTTTCTCAGTTTCCATTCTGCTTGCGCTTCCATTTATGCTTCTGGCCATCTGGCTTCCCTCCACTTACCTTCTTTCTCCTGAACCTTCCTCCCTGATGCTGCATGTAAGGAACTGATGGGAATAGAAGTTAACAAGAGGCCCAAGGTCTTTAGGCCCTCAAGATGGTTGGGTCCTTCATGGACACAGCTACATTTTACTGATCCCCAGTAAATGCTACTCGTGTTTGCCTCTTTCCTCAG
Seq C2 exon
CTGATTTCAGTGTTGAAAGAAATGAACTATCTTCAGCCCACTGAGGTGAAACCGATCCCCGAGACCGCAGCAGCCATGTTCTCCTCCAGGGAATTCTATCGCCAGCTTGTGGCCAACTTGGAGTTGATGGCAAATTGGTACAACAAGGTTATAACAACTCTGCTGGAGGTGGAATTTCCACTAGTGGAGGAAGAACTGCAAAATATTGATCTCCGTCTGAGAGCTGCAGAGGAGACTCTGAGCTGGAAAACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004171:ENSRNOT00000005583:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083857=DHC_N1=FE(7.2=100)
A:
NA
C2:
PF083857=DHC_N1=FE(14.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACTGGTGTCAGACAGTGT
R:
AGTCTCCTCTGCAGCTCTCAG
Band lengths:
344-947
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]