GgaINT0126018 @ galGal4
Intron Retention
Gene
ENSGALG00000003478 | GFI1B
Description
Zinc finger protein Gfi-1b [Source:UniProtKB/Swiss-Prot;Acc:O42409]
Coordinates
chr17:6758080-6759850:+
Coord C1 exon
chr17:6758080-6758208
Coord A exon
chr17:6758209-6759697
Coord C2 exon
chr17:6759698-6759850
Length
1489 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGACACTACTGTGATTACAGCCG
3' ss Score
2.04
Exon sequences
Seq C1 exon
GCAGTGAATGGAAAATGCCACGTTCTTTTTTGGTGAAGAGCAAAAAGGCTCATACCTATCATCAGCACCGCTTTGTGGAAGATGATCTGCCTATATTCACATGGGATCCAATCACCTCTGCTTTCACTG
Seq A exon
GTGAGTCAATACATCCACCGGGCATGTAAGAATACACCAAGGCAAATAAATAATTGAGTAAGCAAGCTAAGGGAGCTGGATGAATGAGCTAAAGAATTACTTAGGGCTCCCATGCAGGGATGGCAGTCTGAGGACAAACAGGTCCCTCAGCGTGCACCCTCTTTCTGTTGGCTAAATCCACATTGTCATGCTGGAAATGAATTTAGATCCTCCCTTTGTTTCCTGTTGGGCTGCTGCTATTATAATTCCAGCACAGCGAGCCCCTTGCACTGACACGCTTTGGGCAGATGCAAGCACTGGAAGCCCTGAGTAACCACAGGGCTTCTGATGGCCAATACTCTACCTGTGTAGGAACTAGACAAAATTCTGCCTTTTATTCTTTGCTCTTGCTCCAGTTGTTGACTCCCATCTCCATTCACTCTGTCTTCTCTACCTCAGTGTTACCACCTCCTCCTGATGATTTGCAAGGAAGGTTACAACTAGAATGAGAAAACAGTGATATCCAAACACTGACTGAAAGGAATCCTGTGCACGGCAGAGGAAAGACCAGCTACTCTATGCTAGATTAACACAAACCAATGCTCCTTCTGCCTATGCCTGCTGCCATCCCTGCTCCTGGTCATGCTCTTCCACAGCCATCTGTGCAATAGCAGGGCTGGGACAATTATCTCCTTCCTTCAGGCACCGTTCGAATTTTCATTATTCAAATCTAGGATCAACTTACCCTTTGTTCTAGCTCTGGCTGTGGAACTAGAGTCCAGCCCTATGATATGCTTGATAAAAGAATGGAAGTGACTTTCCAGTGTCAGTTCCTCACATCATCCTTTGGCCATTTGCAGTGCTTCTCTGGTGCACACGATGGTTTGGATGACACGTGGATGCTGTCCTTCAGCAGCCCAGTGCTGTCTGCAGCAGAAATGAGGCACTTGTATTAGACTTCTGCTTTAGATTTGTACTATAAATTCTACACCTAACAAGCACTGGTTGGTCTCTTAAAGGGCTGAGACAGGCATGGAGAAATGTGAGTGGGCAGGAGGACACAAGGCTCTGAGGTGACCTTTGCAGCTGTACAAGCAGTTACCTCCCTTCTCAGCTTCCTTACTTGGCTGTCTACTGAACTCTCTGATGGGAGAGATGGTGAAGTTACTAAGTTAGTGATTGTTAGTTACCCTCATAAATGAAAATGGTTTTAAATAAGGAAATTGTTCTTACAGAAACATGGCTGCTTGGGGTTAATTTGCTGTAGCTATGTTACATCAAGTGCCATACTGTATCCTGCCCCTCTCTAAGGTGCATATCTCATTCTGCTTAGAATTTCCCTTTGCCAGCAATGGACAGACCTTGGCTGCCATGCTGATTGGACCACTCTGCACCAACTCAGGGAACTGAGCATGGATTTGCGTGTCCAAGCATGAGTTCACATGCTTAGTGCACTGACCGTTCTCTTACCAGCTAGAATAAACTAATTCTGACACTACTGTGATTACAG
Seq C2 exon
CCGCAGGAGACAGAGACAAGACGCCAGAGGATGGCAAGAAACAGGACCTAGAATGGGTGGTTCCAAAACAAGAAAAGGATTCTTTTCAACCAAAGGAAGAAAGTGTCCCTGTCCAGTACCTAAGCAGGATGCTGCCAGGACCTTCAGCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003478:ENSGALT00000005506:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.750
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTGAATGGAAAATGCCACG
R:
CTTGAGCTGAAGGTCCTGGC
Band lengths:
282-1771
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]