DreINT0033634 @ danRer10
Intron Retention
Gene
ENSDARG00000068148 | arrdc1a
Description
arrestin domain containing 1a [Source:ZFIN;Acc:ZDB-GENE-030925-15]
Coordinates
chr5:28922769-28923247:-
Coord C1 exon
chr5:28923093-28923247
Coord A exon
chr5:28922952-28923092
Coord C2 exon
chr5:28922769-28922951
Length
141 bp
Sequences
Splice sites
5' ss Seq
CGGGTATTT
5' ss Score
4.84
3' ss Seq
TTGTATTATATTTTGCGCAGGAA
3' ss Score
7.16
Exon sequences
Seq C1 exon
CTGCTGCACCGACTTCATTTGTAGGGCCTTATGGACAGATTATGTACCGAGTCCGGGCTTTCATCGACACACCTCGATTTGCCAAAGACTACAAGATTGAGAAGCCATTCTCCATGACCAACACATTGAACCTGAATGAAGTACCTGGAATACGG
Seq A exon
GTATTTATGCTACACATAATAAACTGGCGGAAAGAAAAAAACCACACATTCTAATATAATGCATGACTAATGGTAACTGGCAAATGTGATTTACTGCCAGTAACTCAAATAATTAATTTATTTGTATTATATTTTGCGCAG
Seq C2 exon
GAACCTAGCTCATCCTCCGTAACCAAGAATTTCTCATACATGCTTGTGAAAAATGGGACAGTGGTGCTGAATGCGAAGACTGACATGCGGGGGTATATTGCAGGACAGATCATTAAAGTTTCCGCTGGGATTGAAAACAAATCTGACAAGACGACAGGTCATGTGGTTGCCAGTCTAATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068148:ENSDART00000098360:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0033924=Arrestin_N=PD(33.8=86.5)
A:
NA
C2:
PF0275217=Arrestin_C=PU(35.2=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGCACCGACTTCATTTGT
R:
CCTGCAATATACCCCCGCATG
Band lengths:
258-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]