DreINT0033633 @ danRer10
Intron Retention
Gene
ENSDARG00000068148 | arrdc1a
Description
arrestin domain containing 1a [Source:ZFIN;Acc:ZDB-GENE-030925-15]
Coordinates
chr5:28923093-28925198:-
Coord C1 exon
chr5:28925148-28925198
Coord A exon
chr5:28923248-28925147
Coord C2 exon
chr5:28923093-28923247
Length
1900 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TATAAATCTGTCTTTTGTAGCTG
3' ss Score
9.11
Exon sequences
Seq C1 exon
GCACTCTCAAAGAGGGCGAGCACAGTTTTCCCTTCAAGTTTCTCTTGCCAG
Seq A exon
GTAAGTGACGGTTTCATGTAATCAAACTGACCTGCCGCTCTGCATTCCTCTGAGATGTGTCAGAGATTAACCACTGTTTAAGTTTATACACAGCAGCAGAAAAAATGCTCTTGTATAACTAAATATTCACAAACTAAATATTTACCCAGTTTATCTATTTATGCGTTTACTAAAGAAATACAGTACTTTTGAGAAATATTAGTATATTTTAAAACTAGATTTTAAATTTAGCATGTTGTTCTTTAGCAAGTATTAGCATGATGCTTTTGAGTTTTACCATGGTACTATATGTTTCTGCCATGTTTAACATGAATGGACATGTTGGTAATATTTAAAGCATAAATAATTTGCTTGTTGTTAACATGTTTTTAGCATAAATGAGGATGTTGCTAATATGTTTTGAGCAAGAATCAGCACGTTGTTAATACATAGACGGGCATCCGCTGTGTAAAACATATGCTGGATAAGTTGGCGGTTCATTCTGCTGTGGTGACCCCTGATAAATAAAGGGACTAAGCCGAAGGAAAATTAACGATGAATGAATAAACATGATTTAACTATTAATTAGCACATTGCTATATCATGCATAAATCATGCTGCTAACATGTTTCTAGCATAAGTGAACATACTGTTAACATTTTTTATATGACTCGGTATGTTTACTAGCATGTTTCTAATGTTAACTAGCATGTTTCTGGCATTTTTTAAATTTAATTATTGCTAAATTAGAATTTTTATCTATTACCGCAACCATTTCTTTAGTTCAACGTTGTCCAAACTCAGTTCTGGAAGGTTGGTATAGTGTCCTGCATAGTTTAGCAACAACTTTTAAAAAAATATATGTACTTGCCTGAAAGTTTTAAGTATACCTAGAAAGAGCTTGATTAGCTAGTTCAGATGTGTCTAAATGGGGTTGGAACTAAACTTTGCAGGACACCGGCCCTCCAGGACTGATTTTGGGCACCCCTGCTTTAGTTGTGTTATGCTGTTTTTTAGATATCATTCTAAATTCTAGTTTGAAAAGACCCATTTTGGTGTCAACTGGGATGCATTTTGATAGAATCTTTGATAGAAATTTGATATGAGCAGAACTTATTTGAAGTAGAATGCTTTTGTAACTTTTGTAAATTGCTTTGGTAAATGAAGTATTCATTTCTTTTAAAAGGAAGTAAAACCAGAATTCAAACCAAGCAAGCTGACCTTAGTTTGTGGTCAAAAAACAAACTGTTTAGCTGACTTTTTAGCCCTGATAAAACAGGATTTTAATCCAAAAGTTTCCAGTGTAGTACCACCGCTTTGTTAAAAGCAGATATTACATTATTCACAGAGTACTGCCACTTACTGTGAATACTTAAATTAGAAGTTCTGATAAAGTCAGTCAGAGTTTAAATTGTACTTCCTTCATTGTATTCAGTCATCTCACAATATAAAGCTAAGACACACAAACCCATAGGCTACTGCTGCTCATATTGTGTAAATTGCTTCCTTGTCCTCATTTGTAAGTCGCTTTGGATAAAAGCGTCTGCTAAATGACTAAATGTAAATGTAAATGTAAAATATTGTTTGAAACTGCTCAGCTGCTATTTGAAACCTCCATCTACTGTTCCTCTTTTGTCTCGACATTTTAGCGTTTCCAAACAGAATAATAAGAGAAATGTGCCTTCTCATGCTGCAGCGTTTGCTTTTGTGGTTTTTAGCCTTTTGTTAAAAATATTTTGACTCTAATGCATAATGCATCTTTTTAAACTTGAATACATTTACTTGAAAAGAATATGGCAAAAGGCTGTTGTTTGCAAGAAGTCTGATAATTAAAAACCTTTTCTCCGTTTGAGGAGTCATTCATTATTTATCTGAACCGTCACAGAAGATATTCAAGCCTCTATAAATCTGTCTTTTGTAG
Seq C2 exon
CTGCTGCACCGACTTCATTTGTAGGGCCTTATGGACAGATTATGTACCGAGTCCGGGCTTTCATCGACACACCTCGATTTGCCAAAGACTACAAGATTGAGAAGCCATTCTCCATGACCAACACATTGAACCTGAATGAAGTACCTGGAATACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068148:ENSDART00000098360:3
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=0.115
Domain overlap (PFAM):
C1:
PF0033924=Arrestin_N=FE(12.8=100)
A:
NA
C2:
PF0033924=Arrestin_N=PD(33.8=86.5)
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:
AAAGAGGGCGAGCACAGTTTT
R:
CCGTATTCCAGGTACTTCATTCAGG
Band lengths:
198-2098
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]