DreINT0072246 @ danRer10
Intron Retention
Gene
ENSDARG00000044457 | gfi1ab
Description
growth factor independent 1A transcription repressor b [Source:ZFIN;Acc:ZDB-GENE-040116-8]
Coordinates
chr6:29014472-29014888:-
Coord C1 exon
chr6:29014751-29014888
Coord A exon
chr6:29014638-29014750
Coord C2 exon
chr6:29014472-29014637
Length
113 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
3' ss Seq
ACATTTTTTTCGCCCTACAGGAG
3' ss Score
10.45
Exon sequences
Seq C1 exon
GTGTTTTCTACACCCCATGGCTTGGAAGTTCACGTCCGGAGGTCGCATAGTGGAACAAGACCGTTCGCTTGCGACATTTGCGGGAAAACGTTCGGACACGCGGTCAGCCTGGAGCAACACAGAGCTGTTCACTCACAG
Seq A exon
GTAGAGTGCTCAATTTTTTATTTAGGCCAGTGATAAAAAAAAAATGTCATCACAGATTATCCGATTTGCAGATGTGAAAAACGAATGCGTAAAACATTTTTTTCGCCCTACAG
Seq C2 exon
GAGAGAAGTTTTGATTGTAAAATCTGCGGGAAAAGCTTTAAAAGGTCTTCCACCCTGTCCACTCATCTCCTTATACACTCCGACACACGGCCCTACCCGTGCCAATACTGCGGGAAGAGGTTTCACCAGAAATCAGATATGAAGAAACACACATTTATCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044457:ENSDART00000065139:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=58.7)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=41.1),PF102764=zf-CHCC=WD(100=39.3),PF134651=zf-H2C2_2=PU(38.5=17.9),PF0013017=C1_1=PU(11.8=10.7)
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:
ATGGCTTGGAAGTTCACGTCC
R:
AACCTCTTCCCGCAGTATTGG
Band lengths:
244-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]