DreINT0156711 @ danRer10
Intron Retention
Gene
ENSDARG00000076484 | stab1
Description
stabilin 1 [Source:ZFIN;Acc:ZDB-GENE-050208-554]
Coordinates
chr22:10283412-10284856:-
Coord C1 exon
chr22:10284701-10284856
Coord A exon
chr22:10283544-10284700
Coord C2 exon
chr22:10283412-10283543
Length
1157 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGC
5' ss Score
4.72
3' ss Seq
CATGATCTGTTGTCTCTCAGGGT
3' ss Score
10.16
Exon sequences
Seq C1 exon
AACCCTCAAGTTGATTCGTGGATCAATTCGAGTCACAGTTCAGAGCTGCTGCGTTATCACATCGTCAGTTGTGAAGAATTGCACTTATCAGACCTCAAATCTGTTAAAGAAGTGGTCACCGCAAATGGATATAAATTACGCTTCAGCGTTAGAGAT
Seq A exon
GTGAGCTTCAAACACTTTTTTTCCCCCAGTATCTGATTTTTATTTGAACCAGATCACCAGAGGTTTGGCCACTATCTAATATATGACAATATATGCTGATTAAATATGACATAACATGTTTGGATTGTACATACAGTATTTAAAAGTATCCCATAAATGGCATAAATTTTTTACTTTTTTTGTCTTTGATAAACAGTTGAAGACAAAATTATTAATTACTAAATATTTCCCAAGCACTTTTTAACAGAGTTTTTTTCAAGACATTTTAAAGATAATAATTTTATACCTCATTTTTTTGTCTTTGCCATATTGACAATATATAATATTTGACTAGCTGTTTTAGTTTGCTAGATACTAGTTTAAGAGGAGTTAGTTACTAGTAATTGCTGAACGGTGGTTTATTTTGTAGCCATTTCTTCAAAGAGCTAATAATATTGAGTAGTAATTGCTTTTATTTCACCCCAGAATTTCTTTGTTGTTAAGCATTACTTGGGAAATCATTGAAAAAGTATTAAAATTCCAACTTTCGGCTTTCAACTGTATATGCAATCACATATGACATCACATATGTTAAATTATATGTTCTATTTGTATGATATACACGGACCGGCCACTTTATTAGGTACACCTTACTAGTACCAGGTTGGATCTACTTTTGCCTTCAGAACTGTCTTAATCCTTCCTGGCATAGATTGAACAAGGTAGTGGAAATATTCCTCAGAGATTTTGCTCCATATTCACATGGTGAATCTGACGTCAGCAACCATGCCACATTCAAAGTCACTAAAATCCCCCTTTCTACCCCATTCTGATGCTTGGTTTAAACTACAGCAGGTTGTGATGATCATTTCTACATGCCTAAATGCATTGAATTGCTGCCATGTGATTGGCTGATTAGATAGTTGTGTTACTAAGCAGTTGAACGGGTGTACCTAATAAAGTGGCCAATGAGTCTGTGTCAAAATATTGCAAAAGTGGTTATTTACTTTATATATTTACAAATATTCATGTGTAGTTATTTTAACTTGAATTGTATACATATGTTCATTTATACATCCATATATATTAGATTTGGGAGGGACAAATTACGTTAAAATAAATAAAATAAAAAAATCTCCCTGTATTCAATTATTTAACCATGATCTGTTGTCTCTCAG
Seq C2 exon
GGTGTTGTTTACATTAACGACAATACAAAGATTATCACCAGTGATATTGAATGCTCCAATGGAATCCTGCATTACATAGACAAGGTCCTCATCCCGTACGATATAACCGGCAAAGCAGAAATCAGCACTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076484:ENSDART00000092050:48
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:
PF0246917=Fasciclin=FE(43.6=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(26.5=70.5)
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:
AACCCTCAAGTTGATTCGTGGA
R:
TAGTGCTGATTTCTGCTTTGCC
Band lengths:
286-1443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]