DreINT0072245 @ danRer10
Intron Retention
Gene
ENSDARG00000044457 | gfi1ab
Description
growth factor independent 1A transcription repressor b [Source:ZFIN;Acc:ZDB-GENE-040116-8]
Coordinates
chr6:29014751-29015381:-
Coord C1 exon
chr6:29014987-29015381
Coord A exon
chr6:29014889-29014986
Coord C2 exon
chr6:29014751-29014888
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
GTCCTCTCTTTACTCCACAGGTG
3' ss Score
12.23
Exon sequences
Seq C1 exon
AGTCGGAAAAGTCTTTTTCACCCTCCGTGGAAGAAACACAGCCCTTCGCTGTACCCTTCAGGCCTTACGCTTGGAGCAGGTACTCGGGGTGTGAAATCAGGCAGCTGGTCCAACATACCCTCAACCATCACCGCTCTCTGGATCTCGAGCGGCCTACTCCAACCTATTACAATGAGCGCGTGACCGAGCCCTCTATTTTCACCGAACGAGGATCTGGCGCAAGAATTTACAACAGCTATGGCTCCACTGCCTCTTTGTTCGAGCGCGCCACTGCTTCTGGACTCTTTGATGATAGCAGCATGTTGGGAAAAGGAACTGAGATGAAGTCCAGCTCTGATGTGATCTGCAGTCGTCTCCTGTTAAATGGCGCATACAAATGTATAAAATGCAGCAAG
Seq A exon
GTACTATAGCCTAACTAGTACAAAGAGTATACGTTCAGTTTTTTTTAAATCAAGATGAGAAATTGTTTATTGAAGACTGTCCTCTCTTTACTCCACAG
Seq C2 exon
GTGTTTTCTACACCCCATGGCTTGGAAGTTCACGTCCGGAGGTCGCATAGTGGAACAAGACCGTTCGCTTGCGACATTTGCGGGAAAACGTTCGGACACGCGGTCAGCCTGGAGCAACACAGAGCTGTTCACTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044457:ENSDART00000065139:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.197 A=NA C2=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=58.7)
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:
TCGTCTCCTGTTAAATGGCGC
R:
AACAGCTCTGTGTTGCTCCAG
Band lengths:
175-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]