RnoINT0065153 @ rn6
Intron Retention
Gene
ENSRNOG00000051563 | Giot1
Description
gonadotropin inducible ovarian transcription factor 1 [Source:RGD Symbol;Acc:620184]
Coordinates
chr7:13108330-13108723:-
Coord C1 exon
chr7:13108597-13108723
Coord A exon
chr7:13108391-13108596
Coord C2 exon
chr7:13108330-13108390
Length
206 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
TTTCTGGTACTATATTTTAGGCT
3' ss Score
7.95
Exon sequences
Seq C1 exon
GATGCAGTCACCTATGAGGATGTGTATGTGAGTTTTACTCAGGAAGAGTGGGCTTTGCTGAATCCTTCCCAGAAGAATCTCTACAAAGATGTGATGATGCAAACCTGCAGGAACCTCATTGCTATAG
Seq A exon
GTAAGAATGTTAATTTTTTTCCTTCACCTGTTAGACAAGGGGACAAGTGTTTATTGGTTATTGGTACACTACTTCGATCTCAATTATGAAAGTGGAAGAATGTGGTGAATAAATCAGGTATGATTCTCGGGTTCAACAAAGATAGTAACTTAAATTTTGCATAATTTTTAATAATATAGCAGACATTTTCTGGTACTATATTTTAG
Seq C2 exon
GCTACAAATGGAACAGTCAGAATATTGAAGAACATTGTCAAAGTTCTGGAAAACACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000051563:ENSRNOT00000080491:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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:
GATGCAGTCACCTATGAGGATGTG
R:
CTTTTGTGTTTTCCAGAACTTTGACA
Band lengths:
188-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]