GgaINT0035020 @ galGal3
Intron Retention
Gene
ENSGALG00000002681 | HSD17B7
Description
NA
Coordinates
chr8:3828047-3828862:-
Coord C1 exon
chr8:3828748-3828862
Coord A exon
chr8:3828242-3828747
Coord C2 exon
chr8:3828047-3828241
Length
506 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
TGGTGGCAATTCCTTTTCAGATT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GAGGTTACTCCATATGCTGACCACTGCAGAAGGCGTCATGACGCAGACGGACAGACTGAACGGGGATGGGCTGCAGGAGGTCTTTACCACCAACCTCTTTGGGCACTTCATCCTG
Seq A exon
GTGAGGCTGAGCGAAGGTCTGGGTAACACGGCCCAGTGGGTGCTGATGTGGCTTCTGCCTTACGGGTTCTGATCCTGGTTCAAGCTCAGGCCTGACAGATAAAGAACAGTAGGAGAAAGGTGTTGAAATAGCTCTAAGTGGCCACAGAGTGGTTGTAAGGATTAATGCAATCTGAAGCTCCCTGCAGTCGGTGGGTAGAGGTAAACCAGGCGCAGCTCTTCCCCTCTCCAAGGAGGCCACCAAGATGTGGCTCTGTGCACTGCTGGGGTGCTCCTCTGAGCTGTGCAGAACACTGCCACTGCTTGTACAGCTTCCTGGGGGAACCTGGGCTCAAGCTGCACCTGAGCTGTGGCTGCTTTCTCTGCACTGCTTGGCACGGCTGACGTGCGGCCCATGTACGAAGGCTGGCATGGGTTTTTATTACCAGGAGATCTGAGCTTGCAGCTTTACAGTATGGTAAAACACCGCCATAAAGCTTTACAGTTGTGGTGGCAATTCCTTTTCAG
Seq C2 exon
ATTCGTCAGCTCGAGTCTCTGCTCTGTGGCAACGAAAAGCCGTCACGACTCATCTGGACCTCTTCCAGCAATGCAAGGGAATCTGCCTTCAGCCTGTCTGACTATCAGCATGCCAAGGGGCAGGAATCATACAGTTCCTCCAAATACGCCACTGACCTGACAAGTGTGGTTCTGAACAGGAAATTTAATAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002681:ENSGALT00000004223:4
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=0.000
Domain overlap (PFAM):
C1:
PF0010620=adh_short=FE(36.2=100)
A:
NA
C2:
PF0010620=adh_short=PD(51.4=83.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGTTACTCCATATGCTGACCAC
R:
TAAATTTCCTGTTCAGAACCACACT
Band lengths:
302-808
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]