DreINT0138736 @ danRer10
Intron Retention
Gene
ENSDARG00000077905 | si:ch211-236p22.1
Description
si:ch211-236p22.1 [Source:ZFIN;Acc:ZDB-GENE-050419-118]
Coordinates
chr16:47894874-47896065:-
Coord C1 exon
chr16:47895878-47896065
Coord A exon
chr16:47895069-47895877
Coord C2 exon
chr16:47894874-47895068
Length
809 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
TGTGTTCCTCTCCCGTATAGCTA
3' ss Score
9.06
Exon sequences
Seq C1 exon
TTTTAGCATTGAGCCCAATTATGACTTCTTATACATCTACGACGGACCTCACAGCAACAGTCATCTGATCGGCACCTTCCAAGACAGCAAGTTGCCAGAAAAGGTTGAAAGCAGCTCCAACATCATGCACATCGCCTTCCGCAGTGACGGGTCAGTCAGCTACACAGGCTTCCATCTGGAATACAAAG
Seq A exon
GTATGCTGTTGACGTCACCTTGAATTTTCAGTATCACACATGACTAAAATGAATAGAATTAGTATGGACATTTTCACAGACTACAAACTACATAAATATACAGCCAACTTGATTGTTTTCACTAGATTGAATTGCCGTTATCAGTTGTTTTCTGATAGATATGGGACCTACTGGTAGGCTCAGAAGGCTGTTATCATCCATCCAAATAGTTGATCATCTATAGAACATATGTGGTCTGAAGTTAACAAGAACTATTTATATAATTTATTAAATTTCTAATTAATTGTATTTTATTGGCGTCTACCCCTACCCCGACCATAAACCCAACCATCACAATACTATAAAGACAGATCTGGATCTGGAGTCTTTTCTATTAGTATAGCTGATTAATTATGTGGATGGATGATAATAGCCTTCTAAGCCCCTACTGGCCCATATCTATCAGCTGATAACCACTGATAATGCCCATTCAATCGAGTGATATCATTCAAAGCGGGTGCAAATATAACAAATTTTCTTTTAAAACAACCCATATGTGTGTGTGTGTTTTTAGTGTTTGCTCAATCTGTATTCGTGCTCTGGAGCGCTGCACATATCGATTTGTATTGACTGCGATGACCAAATGCTGACAGAGTGTTCCTTTTCATGTGCCCTGTTCCTTTAAGATGGCCGTGATATACTATTTTAAGAAGCTTGACCACAAAAACTGGAAAGTTTGAAAGGTTGACAGTGACTCACCGCTTGGCATTTCGTTTCATCTTCTTCAGCTTTATCATTCGCCATATGTCTTGTGTTCCTCTCCCGTATAG
Seq C2 exon
CTAAACTGCGTGAGGCCTGTTTTGACCCGGGCAGCGTGATGAATGGCACGCGGTTGGGTGGAGACTATAAGCTGGGCTCCACTGTGACCTTCCACTGTGATCCAGGCTACCAGCTACAGGGATATTCCAGCCTCACCTGCGTCATGGGCGCCACCAACAGGCCTGAGTGGAACAGAGCTCTGCCCAGCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077905:ENSDART00000148564:28
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:
PF0043115=CUB=PD(57.5=95.3)
A:
NA
C2:
PF0008415=Sushi=WD(100=87.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCTACGACGGACCTCACA
R:
CTGGGCAGAGCTCTGTTCCA
Band lengths:
343-1152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]