RnoINT0041768 @ rn6
Intron Retention
Gene
ENSRNOG00000034164 | Cr2
Description
complement C3d receptor 2 [Source:RGD Symbol;Acc:1310065]
Coordinates
chr13:113907971-113908979:-
Coord C1 exon
chr13:113908903-113908979
Coord A exon
chr13:113908379-113908902
Coord C2 exon
chr13:113907971-113908378
Length
524 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GTATCTTTTCATATCCCTAGAAA
3' ss Score
8.68
Exon sequences
Seq C1 exon
GTTCCAGATAAGTGAGAGTGCTTATCAACTGTGTCAAGGTACAATTCCTTGGTTTATAGAGATTCGTCTTTGTAAAG
Seq A exon
GTGAGTAACAAAATTGACAGAGGATTTAAAGTGATATAAGGTTGATAAGTTTCCTACTTTAGACTTATGCTATAGGAATTACTACATTATTTTGTCAAGCTTTACAGCTATCTATTTTGCCACCTTCCTTTTGTTGCCTCTTTCTTTAATCAGTCAAATTCCATGTGCTTAGTTACCTAGTTTATATTGTGGTTTAGGATGTTCGGAATATAGAGCGATCACTCTATCTGAGCCACAATTCCTACTTTGGGTTACATCAAGATTTAGGGAAGAGATAGGAGATTGGTGTCAAATCTCAACTCACATTCCGTTCCTGTTGTCTAATACTTGTATGACCTTTGGCAACATATATAACTTTAATTTAAATTTTATTTACAATGAAATTTGTTTAAATTTTATATAAACAATAAGGTTTAATTACAGCATGAGTGCATAATCCACACCCTCCAAAGAAATAACATGGTCAGAACTGATGCACTTCTAACCCTTGGTCTGATGTCTACAGTATCTTTTCATATCCCTAG
Seq C2 exon
AAATCACCTGCCCACCACCTCCTATTATCCTCAATGGGACACATACATGGCGTTCCTCAGAAGATGTCCCATACGGAACTGTCATCACTTACATGTGCTATCCTGGGTCAGAGGAAGGAGTAAAATTCAAACTCATCGGGGAACAAACCATCCACTGTACAAGTGATAGCAGAGGAAGAGGCTCCTGGAGTAGCCCTGCTCCTCTCTGTAAACTTTCCCTCCCTGCTGTCCAGTGCACAGAAGTCCATGTTGAAAATGGAGTCAAGCTCACTGACAATAAAGCCCCATACTTCTACAATAATAGTGTGACATTCAAATGTCGTGATGGATACATTTTGATTGGAAGCAGTCAGATCCGGTGTAAAGCCAATAACACCTGGGACCCTGAAGCACCACATTGTAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034164:ENSRNOT00000010910:9
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:
NO
A:
NA
C2:
PF0008415=Sushi=WD(100=48.9),PF0008415=Sushi=WD(100=41.6)
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:
AGTGCTTATCAACTGTGTCAAGGT
R:
TGGGGCTTTATTGTCAGTGAGC
Band lengths:
348-872
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]