DreINT0072243 @ danRer10
Intron Retention
Gene
ENSDARG00000044457 | gfi1ab
Description
growth factor independent 1A transcription repressor b [Source:ZFIN;Acc:ZDB-GENE-040116-8]
Coordinates
chr6:29016274-29016932:-
Coord C1 exon
chr6:29016784-29016932
Coord A exon
chr6:29016475-29016783
Coord C2 exon
chr6:29016274-29016474
Length
309 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
AAATAAATATCTCATAACAGAAA
3' ss Score
4.13
Exon sequences
Seq C1 exon
CTAATGACTGGGGACATATGAGGCAGAGGAGGACACAATGCCTAGGTCTTTCTTGGTGAAGAGCAAAAAAGCGCACAGCTACCACCAGCCGCGATCTTTGGAGGATGACTTCAACAGACTTGATAATATTTTGGCTCATATATGTGCAG
Seq A exon
GTATGTCTAAATTAAATTGAATCACTGAGTACTGGTGTAGATAACTATGACAAAGCAAAGTGTAATCTACTGCAATTGCCAACCTGATTTTTTTTATTAAAAATAAAAATAATATTTTTTTATTGGCTAAATATTGTTTTCTTCTTAAAAGACAGTGAGCTGTTTTTTAATAAAACCCGAACTAAACTATAAACGCATTTAAAGAGGGGAAAACTCAATTGTAGATTTGCGTTTGGGTATGTACAGTTGTTGAGAGATTGCGCATTATACAGCTGTGGTTTTGACGAAAAAATAAATATCTCATAACAG
Seq C2 exon
AAAGTAAAACTTCAGACGAGTCGGAGTGCTGTGCGGATGCTCTGACAGGCGACACGACTGGCGCTGGTTCACCAGACTCTCACCTTCTGGATCAAGCTGATCTTTCCTCCAAGTCTCCTCTCAGCTGTGAGGAAAGCGTGTGCGATCGCTCGTCAGATTACGAGGACTTTTGGCGACCACCATCACCATCAGCATCACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044457:ENSDART00000065139:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.132 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGGACATATGAGGCAGAGG
R:
CCGGTGATGCTGATGGTGATG
Band lengths:
342-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]