RnoINT0020253 @ rn6
Intron Retention
Gene
ENSRNOG00000013220 | Arhgap45
Description
Rho GTPase activating protein 45 [Source:RGD Symbol;Acc:1308662]
Coordinates
chr7:12739873-12741296:-
Coord C1 exon
chr7:12741052-12741296
Coord A exon
chr7:12740198-12741051
Coord C2 exon
chr7:12739873-12740197
Length
854 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TTTTTCCTACTCCCTCCTAGGAG
3' ss Score
9.33
Exon sequences
Seq C1 exon
GTGGGTCTGACAGCTGGGGAGGGGGTGGCCCTGAGCAATGTGGTCCAGAAACAACCAGCACCAGGCGCTGCAGGACTGAGACCACCCCCCAGTCCCCCACCCCTGCCGCTGCCTGTCTGTCCTCACCTAGAGCCACTGGGGCTGGCTCCACCATGTTCTCTCGGAAGAAGCGAGAACTTATGAAAACTCCCTCTATTTCCAAAAAGAACCGCGCGGGGAGCCCCAACCCGCAGTCCTCCTCAGGG
Seq A exon
GTGAGTGGGGCACAGAACGGGTGGGGACCCAGGATGACAACCACAGCCTGTGGCCACTGATGGGTACAGGGACAGCTTACAGCACCATGCTGGGCCCAAGGTGGGGGAACCGGGCCAGCTATCGTCCTCAGCAGGCAGAATGGCCGGCAACAAGGAGCGGTCTGAACCTGGGAGTCCGCCTTACGGTAGGTAGGGATGTCCTTGGGTGGCCACCAAGTCACCCATCTTTATGAGGGATGTCCCATCATGTGCCAATGGAGGTTGTGGGTAGAGGGCAGAACTGGTGCTGGAGTCTAGTGACTAGACTGTAAAACGGGGTTTGGACAATGTTAGGGTTCCGGAAACCAATGGGGAAATGGTGTTGAACTGGGGTTCAGGTGTGCAGGGCAGATTCGGGTGGGATCTCTGAGTTTCCCCAGGACCTGAGGCTGCCTGCTTAGCTTTGGGGGAATTTATGGAGTTTAGGGGTCTGGGATACCCTGGGACTCAGGAGCGGATGACTGTCTCCTCAGGTCACAGAACTTACCCATTTTTTATAAAGTAGACACCCGTGGAGGCGTCTGTAGTGGCTAAAGGGCTAGAGATCCACGAGGGTCCTCCCCACCCCCACCAGGAAGTGGGGTGCCCCCTCCCTCCTGTGCCCCACAGGCCCCGCCCCTGGCTGTGGTTTGGGTAGGGACGGTTGTTTGTGAAAGCTAAAGACAGGAGGATGTTGGGTAACAGGTGGGGGGGGGCGGTTTACAATTCTCTCCTCCCATAATCTCTGACCCCCACCGGTGAGGAATTCCTGGGAAAACTGAGGCAGTGTTTAGGATGGAGGATCCCCTTGACTCCTTTTTCCTACTCCCTCCTAG
Seq C2 exon
GAGCTGCCTCGGAAAGACTGTACAGAAACTCCTAGCCTGGAGCCACCAGCCATGTCCCTGTCCACGGTGGCCAAGGGCACAGGAACACTCAAAAGGCCAACCAGCCTGAGCCGCCATGCCAGCGCTGCAGGCTTCCCACTCTCGGGCACTGCCACACGGACTCTGGGCCGTGGATATCGAAGCCCCCTCTCTGCTGCCAGCCCCGCAGAGCTACCCACTGAGGGACCTTTCCCTGACGGTGTAGAAGACATCTCAACCCTGCTGGCTGATGTTGCCCGCTTTGCTGAGGGCTTGGAGAAGCTCAAGGAGTTTGTGCTGCGGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013220:ENSRNOT00000060648:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.651
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:
GCTCCACCATGTTCTCTCGGA
R:
TACACCGTCAGGGAAAGGTCC
Band lengths:
344-1198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]