RnoINT0035396 @ rn6
Intron Retention
Gene
ENSRNOG00000030715 | Cfh
Description
complement factor H [Source:RGD Symbol;Acc:620428]
Coordinates
chr13:57002165-57003109:-
Coord C1 exon
chr13:57002903-57003109
Coord A exon
chr13:57002339-57002902
Coord C2 exon
chr13:57002165-57002338
Length
564 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CTCATTTGTGTCTTTTTCAGGAA
3' ss Score
12.58
Exon sequences
Seq C1 exon
AAAAAATTCCATGTTCCCAGCCCCCTAAAATTGAACATGGATCTATTAAGTCGCCCAGGTCCTCAGAAGAGAGAGATTTAATTGAGTCCAGCAGTTATGAACACGGAACTACATTCAGCTATGTCTGTGATGATGGATTCAGGATATCTGAAGAAAATAGGGTAACCTGCAACATGGGAAAATGGAGCTCTCTGCCTCGTTGTGTTG
Seq A exon
GTGAGACTGACATGAAAATTCAATTTTCATTTTCAATATGTCATTACCAATATTCTACTCTTATCCAAGCCAGAGAGAAAGAATAATTTAGGATAGCACATATATACATTTATATATTTTACTATACATTTATACTTGCACACTATAATCTATGCTGTTTTAGTTCATTGTGCCATTTCTGTAGACATATACTTTCACTCTTGCATTACCGTTTTTAAATATGATGTATTACAGACTCCATGTGCTCATGTGAATTCTACTGTTTGATTTGCCACCAAGTATTAAAGTCCAAAGTATCTTTTGCCTAAAATGTCCTCCCCACTCCCATCCCACAATACATGGTATTTTCTGATATTTGTAATACTTTCAAGTTGTTTAACAGATGCAAGACAACAGAATGTGCTATTAGGAAGCACTGCCCACCTTCCTTATGATGATGCATCTTTCATATTAACACTTCCTTCTTGTACCCCTACACACAGAACTGATACATACAAGCAAATTTCTGTATTAGTGCAATGTGGAATTGTTTAACTATGTAACTCTCATTTGTGTCTTTTTCAG
Seq C2 exon
GAATACCTTGTGGACCCCCACCTTCAATTCCTCTTGGTATTGTTTCTCATGAACTAGAAAGTTACCAATATGGAGAGGAGGTTACATACAATTGTTCTGAAGGCTTTGGAATTGATGGACCAGCATTTATTAAATGTGTAGGAGGACAGTGGTCTGAACCACCCAAATGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030715:ENSRNOT00000017749:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.4)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTTCCCAGCCCCCTAAAA
R:
GGTTCAGACCACTGTCCTCCT
Band lengths:
358-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]