DreINT0181417 @ danRer10
Intron Retention
Gene
ENSDARG00000087536 | znf407
Description
zinc finger protein 407 [Source:ZFIN;Acc:ZDB-GENE-110411-123]
Coordinates
chr16:6800016-6800468:+
Coord C1 exon
chr16:6800016-6800182
Coord A exon
chr16:6800183-6800384
Coord C2 exon
chr16:6800385-6800468
Length
202 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TCATTGATTTTCTGTTTTAGGAG
3' ss Score
11.79
Exon sequences
Seq C1 exon
GAAGTTTGAGTGCGAGTTGTGTGATCGGACCTTCAGTGAGAAATGGGCACTGAATAACCACATGAAACTACACACAGGAGACAAACCCTTCAAGTGTGCATGGCCATCGTGTCATTACGCCTTCCTGACTCTCTCTGCTATGAAGGACCATTACAGGACACACACAG
Seq A exon
GTACAAAATAAGATCCGCACTTTAGGAACAGACAGTAAATAAATATCCTTTGACCGAAGGCCATAGCTAAGGACAGGCTTTTTACAAGTGTAATTCTGGAGATATGATGGGAGTAAACCCAATATAGATTTGTAAACAAAGATATGCCACTGCTTGAGCCTACGAATGGACTTTAAGCAATGTCATTGATTTTCTGTTTTAG
Seq C2 exon
GAGAGAAGTCTTTCTTGTGTGATCTCTGTGGATTTGCTGGAGGAACTCGTCATGCGCTGACCAAACATCGTCGCCAGCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000087536:ENSDART00000148479:4
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=0.138
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(37.1=22.8),PF134651=zf-H2C2_2=WD(100=49.1),PF134651=zf-H2C2_2=PU(38.5=17.5)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=51.7),PF134651=zf-H2C2_2=PU(38.5=34.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGTGCGAGTTGTGTGATCG
R:
CTGTGTGCTGGCGACGATG
Band lengths:
245-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]