GgaINT0020355 @ galGal4
Intron Retention
Gene
ENSGALG00000006937 | P4HTM
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:HGNC Symbol;Acc:HGNC:28858]
Coordinates
chr12:11643420-11645164:-
Coord C1 exon
chr12:11645068-11645164
Coord A exon
chr12:11643583-11645067
Coord C2 exon
chr12:11643420-11643582
Length
1485 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
GCTCCTGCTCTCTTCCACAGGCG
3' ss Score
11.4
Exon sequences
Seq C1 exon
GTGCTGACTCACACCCGCCTTGGGAACGGCAGGTGGATGACCCCCGAAAACATCCGAGAGATGTACACTGCAGTCAAGGCTGATCCCGATGGGAACG
Seq A exon
GTAAGGGCTCCTTGGGAATCCCCACATCCTCGGCATGGGACACCACACACAGCCGTGCAGGGAGAAGCAAAAGCCATGTCCCTGCCCAGGCCTGTTGTATTAGGTGTTGTTCCAAGGAAAGTAACGCTGCTTTAGAGACCTTTGCAGAAAGCAAAATTGGTGTAGACCTCTCAGAGGCTGTGCTGGGTCTGACCACGTAGCTTTCAGCGTGTGGGCTGCAGCCCTTAAGGTGCTCCCTCCTGCTTTCAAAGGGACTTCTACATCTGTCTGAGGGAGCTGCTTCACTGGCATGGGAGTGCAGCATCGGTGGACATGGGGTGGTCTTGGTCAGCTTTTGGTGCTGATTCCATCTCTGCCACTGCTCTGTTCTCTGTATTACGGGAGGCCACTTCTGCCCCCCCTTACCCTGGTCTCCCTCTGGCCTGGACGTGCACTCTAACCTTTGCTGCTCTAATTAGAGTGTCCTCAATTAAGCAACTCTCCATTTCCTAATCAAATTAAGTGAATGCACAGGCTCTGCATGCTCTCTTCCAGTGACCTGGCATTGAGAGTGCCAGAGAGGAGCTGCTTTGGAGATGAAGCAGTACCCATGTGAATGCCTAAATATCCGGAGGGCACCCCGAGCACCCACACTGGTGACATTTTTGGCAGGGGTAGGAGCGTATGACTGAGTTGCCAATGGCTTTTCCACCGTTCCGGATGCTTACGAATGAAAAGTCCTGTTACAGTGCTTTTGGCAGGACCTTGCTTCCACAGTGCTGCTTTCCTCCACTGTCACATCGGTGCGTGCCACTGAGGGACCAGGTCACGACCTGGATGTGGCACTGTGTTATCAAAGGCTGCGTCAAATAAGGGGAAGTGGGGACTGGGAGATGTGAGCAGGGCATGAGAAATAGTGACGTGGGTGATTTGCTGACAACAGCCAGCACCTGAGGAGCTGCCCTGGGCTGACCCTGGTGGCTGAGCCTTCCCCCTGTCTGCAACAGCAGTGTGTTTGTTGCCTCCCTGAGCTCCTCATGCTGGCTGCTGGGCATGTGCTGCTTCCCTGCTTCTCCAGAAAGGGAACACAACGAACGGTAAGGATTTCTCTGAAGCTAACAGAGGCAAAAATCCATCCCTTGCCAAGCTCAGCTGAGTGCAAACAAGAAGTATCTGTTCTAGTAGAAACCTCCTTTTACCTTTTGTTTTTCTGTCTTCTACTTACGCCGGATTGTACTGCGTTGTGTATCTCTTTCACGTTTTGGAATTGCCCAAAAGCAGAAGAACGTACTGCTTGTTGTTTGGGGTTTGCTTTTTTAAATTGCCCTGCAAGGTCTTGTAGGAAGTTGGTCTGAGGTGTCCCCCTCTGCTCCATTTAAATCTGTAAGTAGCAAGTTGATTGTGTTTTGCCTGTTCTGGTTCTGACCTTGCACTGCAGCTGAAGGTTCTCTATTGCCTCGTGCACGTGGGGTGCCCAGGTCAGCCCGCTCCTGCTCTCTTCCACAG
Seq C2 exon
GCGTGCTGAGTTTGGAGGAGTTCAAGAGACTGAACATCCGTGACTTCCACAAGTACATGGGGAGCCAGAAAGTGAAGATGAGTGACGCGGTGCGCAACAGCCAGCACACGTGGCTGTACCAGGGCGAGGGCGCACACCAGGTCATGAGAGCCATACGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006937:ENSGALT00000011237:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF134051=EF-hand_6=PD(31.0=27.3)
A:
NA
C2:
PF134991=EF-hand_7=PD(10.5=20.0)
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:
GTGCTGACTCACACCCGC
R:
CGTATGGCTCTCATGACCTGG
Band lengths:
254-1739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]