GgaINT0020358 @ galGal4
Intron Retention
Gene
ENSGALG00000006937 | P4HTM
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:HGNC Symbol;Acc:HGNC:28858]
Coordinates
chr12:11640917-11641539:-
Coord C1 exon
chr12:11641449-11641539
Coord A exon
chr12:11641041-11641448
Coord C2 exon
chr12:11640917-11641040
Length
408 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CTGTTGTTGGTTTTGGTCAGTCT
3' ss Score
4.2
Exon sequences
Seq C1 exon
GTATGTGACAGTGCTGTTCTACCTGAACAATGTGACGGGTGGCGGAGAAACTGTCTTTCCTATAGCTGATAACAGGACGTATGAAGAGATG
Seq A exon
GTGAGTGGCTCTGTCCTTCACGGAGGTTCTGGGTCCCACTGTGACTGTATTCGCTATAGAAGGGGGATTTGGAGATGTGAGCCTTCTGAGCTGGAGTGTGGGAAGGCCAAGCTCCACACTGAGTGATTTTGCTCAGAGGCCAAGGGAGGAGGTGCAAGGCTTTGGCAGTTCCCCACTCCAATGCGTGAGAGGCAGCCTTTGGACCTTGCTGCCCTGACACAGGTTCTGCTTGCTGTAATCTGGGCACTTTTCTTCAGAGTAAGAGAACTGTAGGCATGCTGTCTGGCGACGCGTTAAGGGACTCAGCACAGGGCAGGAGGATGCTGGCAGCACGGCACAGCCCCTGTGCTTTGTTCCAGCCCCTTTTATGACACCTTCTCTGTGTTTGCTGTTGTTGGTTTTGGTCAG
Seq C2 exon
TCTTTGATCCAGAATGATGTTGACCTGCGAGATACTCGGAAAAACTGTGACAAGGGCAATTTGCGAGTGAAACCTCAGCAAGGCACCGCTGTCTTCTGGTACAACTACCTGTCGGACGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006937:ENSGALT00000011237:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=FE(20.5=100)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(28.1=100)
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:
GTATGTGACAGTGCTGTTCTACCT
R:
CTTCTCCGTCCGACAGGTAGT
Band lengths:
215-623
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]