DreINT0109509 @ danRer10
Intron Retention
Gene
ENSDARG00000075209 | p4htm
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:ZFIN;Acc:ZDB-GENE-110131-7]
Coordinates
chr6:40740788-40742917:-
Coord C1 exon
chr6:40742732-40742917
Coord A exon
chr6:40740879-40742731
Coord C2 exon
chr6:40740788-40740878
Length
1853 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
AACATTTGTGTTTTTCACAGGTA
3' ss Score
10.2
Exon sequences
Seq C1 exon
AGTAACTCTTTTAACTCGACTGCCATCCTCTCTGGTGGAGTTAAGTGAGCCGCTTCAGGTGGTCCGCTATGAGCAGGGCGGTCATTACCACGCTCATCATGACAGCGGACCTGTGTATCCTGAAACTGCCTGCACACACACTCGCCTTGCTGCCAATACCACTTCTCCATTCCAGACGTCCTGCAG
Seq A exon
GTCAGCCAGAGATTAAGAGTATTATTGATTTATGTCACGAAGTATAGTTAAAAACGTGAAAAAATTCACTGAGTTAGCATTTGGTGTTGTCAAATCAATACTATCTTAAAGGGATATTTCACCCAAAAATGAGTTATTTTGGAAAAAAGCAACCAACATTCTTTAAAATATCTTCTTTTGTGTTCAAAAAAAATCTTGAAGGTTTAAAACCACACTGTAAAATTTTTTGTTCTTATTTCAACTTAAAAAGTAAGTGTTTGTGCTGATTTAACATTTTAAGTTGTTAGAGAGTTAAGTTGTCTTAACTCAGGTTGAAGTTGACAGGACTTGACAATATAACTGTTATGGATGTGGTCTAAGATTAGTTACCTTAGATAAGATGTTGTAATTAAGAATGATGTTGATAGGACTTTATAACTCAAGTGTAAAGGACATGGTTTAGGTTTAGTGAACTTAAATATTGAAGTTGACTGCTTAGTTCACACACACACTATGGCCAATTTTGTTTTTTCAATTCACACGAAACCGGAAGCACCTCATACAAACACACCAAACATAGACTCATTCTGAAAACGTAGCCCAATATACATTTCTGGAGATTGCGGATTATGTAGCCAGAGCTATGTATGGCTGCATTTGTTCTTTAAAACAAACAATTCAGGGCGGTATGATGCCGTTTCTTTTCTTGCTTACCAGCTGACCGCTTACCTCCATATAAATGGCTTTTTTTGCTGTTACCAGTTTGACCGGTAGCTCGACACATATGTCAACAGAATTGAGACACTGCGACAGCTAGGTCCGAGTCTGGTAAAGGACGGTACCAGGAAATGGGTAAGACAAAACAAAAGCTAAAAAAAAATAAATAAAACAAGTATAAATAAAACAAGTAAACAACAGGGTGAGAATGTGGTAAATGTCTGGACGCTTTTCTTTTTTTGGAGTGATTTTTAAAACACTGCAGTTAGGTTTAGGGAAGTGTGTGATCAGGTAAATCAATGCTTTTAAAACACTATTGGTTGGGTTTAGAAAAGGGGGAGGGTGGTGGATCGGTCAGTCAACAATGCCCTCTGGTGAATTTACGTAAGAACAGCAGCCGTGAATGGCACTCTTGAAAGAAACTTGACATTTGTAAAAGCGTACACAGCGGCCTCTGGTGGATTCGTGAAAACAAAAACTAAAAAAAAAACGTAGCTTCTGGGACGTATTTGGTGCTCTGCTGAAATGTATAAAGGGGTACATAAGCCTGGGTTGACCACACCACAACGTTTCAATGAAAAAATGCACCACCAGATACACTTGAATGTTTCCAGCCCAAACTGTCCAATAACCATCCCATATGCACAAATGCAAATGCCTAACAACTAATAAGACACCTTAGGTACACACACTTGGTTTTTGTTAAATATTTAACAAAACATCCAAACTGATACCAAACTTTGTCATCTCGATTAAGCCTTTTTTTTACCAGAACTGCAAATTCTAAGCCTGCAGTTTAGATGTTACAGTCTGACGTCATCCAAAAGTAAAAAAAAAAAAATCTATTTTAGTAAAAGAATCATAATAAATAAATAAATTATATGAGTAAATTTTCATTTTTGGGTGAACTATCCCTTTAAATAGCCTTTGCATCTTTTATGTCATAAGACTTTGCTTAGTTTTTCACATGAACCGCTCAAATCCTTAATTTGAGCTTAAACTGGTAAATGGCTAATAAAACAATAATGCATGCATGCAAACTCAGACAATGTGGTGTTCATTTAAGGTTTTTTTTTTTTTTGAACATGCAATTTTCAATCTCATAGCAACAGTAAGTTTCCTTTCTCTAAAGTTTAAAACATTTGTGTTTTTCACAG
Seq C2 exon
GTACATCACAGTTCTGTTTTACCTTAATAATGTTCAGGAAGGAGGCGAGACCACCTTTCCAGTTGCAGACAACAGAACTTATGAAGAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075209:ENSDART00000154916:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(20.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTTTTAACTCGACTGCCATCC
R:
GCTTCTTCATAAGTTCTGTTGTCTGC
Band lengths:
272-2125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]