DreINT0177877 @ danRer10
Intron Retention
Gene
ENSDARG00000077987 | zfat
Description
zinc finger and AT hook domain containing [Source:ZFIN;Acc:ZDB-GENE-130204-2]
Coordinates
chr16:25436196-25438054:+
Coord C1 exon
chr16:25436196-25436345
Coord A exon
chr16:25436346-25437880
Coord C2 exon
chr16:25437881-25438054
Length
1535 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GTTCTGTTTTTTGTCTCCAGGAC
3' ss Score
11.33
Exon sequences
Seq C1 exon
ATGTGCCATTGAACGTCATCTCGGAGGCATTGGGGATACGCGTACATGTGAAAGGAGTGATCGGGAAACGAGCATCCAAATGCCCATATTGTGACTATTTCTTCACCAGGAATGGCGCTGACCTTCAGCAGCACATATGGGCTCATGAAG
Seq A exon
GTGGGGTTATGACATTTGACTCTGAGTTCACGCAAAACTGAAAATTATGTCATCGTTCTCTTGCTGTCTTTTGGATGAGATGTTAAAACAAGGTCCTGACTCTCTGTGGTCATTAAAAATCCCATGGCGTACTGGTAAAGGGTAGGGCTGTAACCCCATTTTCCTGGCCAAATTCCCTCAATCGGCCCCTTACCCATATTGACCTTCCAATCATGCCCATCCACCAAATTGACTCCACATATAGCTGGTGTGTGGTAAGCACTAGGGCTGCTCAATTATGGGAAAAATCATAATCACGATTATTTTGGTCATAATTGTAATCACGATTATTCAAAACGATTATCAGTTGAAGTCAAAATTATTCATCCTCCTGTGAATTTATTTTTATACATAAATATTTCACAAATGATATTTAACAGAGGGTTTTTTACAGTATTTCCTATACATTTTTCTTCTTCTGGAGAAAGGCATATTTGTTTTATTTCAGCTAGAATAAAAGCAGGTTTGAATATTTTGAAACCTATAATAGCTCGATATTATTAGCCCCTTTAAGCAATATATATGTTTGATTGTGTGCAGAAGAAACTACTGTTATACAATGACTTATATATTTTCCCAAATTAATGAATTGTCATTTCATTAATTTCATTAATGAATGTCACTGAATAAATACTAGTATCTTGAAGAATATCTATAAATATAATGTGTAAAATATAATGCGCTGTCATCATAGCAAAGATAAAAGTAATCAGTTTTTATAAATGAGTTATTAAATCTGTTGTTTAAACTGTGCTTTAAGCATCTTCACTGTATTTTGGATTTTATTATTGATTAATAATAAAAACAATCGGCAGAAGCATGCTGTCTTTTTAAGAATAGTTAGATCGCGTTAGATGTGTGTGTGCTCTGCTGTCCGAGGCTAAGCGCGGCGCGCGCGCAAACACACACACGCTACCTGTCCGAGGCCAGACACGGCGCGCACACACACAACAGCACGTGCTCTTTTGGGCTTTTAAAATTATGAATGATGCGCATCCCGTGCTGCAAAAGTTACATTACAGCACATGCTTTTAGTCATTTTCACGTGGAACTGAGCTTTGCAGAGGCAAAGAGTTTTCACACGTGTACAACTGGAAAGGGGGCGGTACTTGATGGAATAATCGGTTATCTCGATTAATGTTTTTTTTATAATCGTTACAAGCAGAAATTGCACAGCCCTAGTAAGCACACTGGGGCCATTGTCCTGTGGCTGCCATCACATCATCTAAGTGGATGCTACTTGATTGTGAAGTGCTTGAATACGCAATGAATACGCTATATGAATGCACATTACATTACATTGACTTTGTTTATAGTATTTGTTTTCCAACTATAGAAGTCAATAGTTACAGGTTTTCAGCTTTCTTCAAAATATCTTCTTTTGGGTTCTACAGAAAAAGAAAACTCATAAAGTAAATGTTTATACTCGGTGAACTATCTCTTTAAATAGACTGCTTTGGTCTATTGATTGATTATGTTCTGTTTTTTGTCTCCAG
Seq C2 exon
GACTTAAGCCATTTAAATGCTCACAATGTGATTATGCCTCAAGAAGCAAGAGCAACCTCAAAGCTCACATGAACAGACACAACACTGAGAAAACACATCTTTGTGACCTCTGTGGGAAAAAGTTCAAGTCCAAATGCACTCTGAAAAGCCATAAGCTTATGCACACAGCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077987:ENSDART00000156351:9
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=0.068
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(38.5=19.6)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=25.4),PF134651=zf-H2C2_2=WD(100=44.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCCATTGAACGTCATCTCG
R:
GCTGTGTGCATAAGCTTATGGC
Band lengths:
318-1853
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]