DreINT0123121 @ danRer10
Intron Retention
Gene
ENSDARG00000014101 | pyroxd2
Description
pyridine nucleotide-disulphide oxidoreductase domain 2 [Source:ZFIN;Acc:ZDB-GENE-050506-147]
Coordinates
chr13:40158982-40161618:-
Coord C1 exon
chr13:40161498-40161618
Coord A exon
chr13:40161231-40161497
Coord C2 exon
chr13:40158982-40161230
Length
267 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CTGAGTTTTTTGTCTTTCAGGTG
3' ss Score
11.03
Exon sequences
Seq C1 exon
AATATTTTCCATGGCTCAATGTCGTTGGATCAGCTTTACCTGGCGAGGCCTTTGCCCTCTATCGCAGACTATCGCTCGCCCGTCAAAGGATTGTACTTATGTGGCAGTGGCAGCCATCCAG
Seq A exon
GTGTGTGCCTGAGTAAATATCAGTGAAAACAGCACGTATTGAGTTTAGAAATGTTATCAGTGTGATCTCACGTTTCATACAGGGTGCTGGAAATCCTTGAATTTTACCCTAGTGTTTGAAAAGTGACAAGCTTTTGGATTAAAATGTGGAAGTGCAGCAGGAAAGTGCTTGGAAAGTGCTTGAATTTGATTTTGGAAAAGGTGTAAGAACATTATTCACGAAACAGATCATGTTTTCCAGCATTTATCTGAGTTTTTTGTCTTTCAG
Seq C2 exon
GTGGAGGTGTTATGGGTGCAGCCGGCTGGAGTTCAGCTCTCAGAGTTTTGGCAGATTTCAAGAGACTGTAATCCTGGATTTCCATAAGGAAAATTTTACTTGCCGATTGAGTATTTTTAATTGGAAAAGAGATGAGGAGAGACATTTCACGCAAAAATGAAACTTCTGTCATCATTTAATCTGCCTCGACTTGCTTCTAACCAGTATGAGTTTTTTTTGTTTCTGTCGAACAAAGAGGAAGATATTTGGAAGGAGGGCTGTGCGATATGAAAAAAAATCTTATATCACGATATAAGTCTTCTCACATTCTTCTATGACTTGAGTAATTTTTCTCAGAAATTGTAATTTACTAAGTAGTTTTAAAAGTGTAAGTAAGTAATGTGGATTTATATAGCGCATTTATTGTGTATGGCCATACACCTAAAGTGCTTCACAATCATGAGAGAGGGTCTCTCCACACCACAACAAGTGTGCAACATCCACTTGGATGATGCGATGGCAGCCACAGGACAACAGCGCCAGTGCGCTCACCACACACCAGCTTTTGGTGGAGTGGAGAGACAGTGATACAGCCAATTCGGTGTATGGGGATGATTGGAAGGCCATGATCGTAAGGGCCGATGGAGGGAATTTGGCCCTGACACCAGGGGTTACTCTTTACGAGAAGTGCCAGTGAGTACTTTTACTTTCACATACTGTAGTACATTTTTAGTGCTATATCGACACTTTTATACCCTTACTTTCCTTCAACCTGCAGTCAATACTTTATTATTTCCTGTCTATGGGGATTAGAAAAATCAGCCCTGTGATTCTTGTCCATTCAAATCGCTCATAGAAAGTAAATCGCACCACACTGAACTACCTTAAACATGCAGCAAAACCATTTGGAAGCATTAAAAAGTGTCCAAGAGGATACTTTACATGCATTGATCCAAAGACTGTTTAAATGCAATGTCACTGATGAGAAGATGACGGGTGTTTACTGTGTGATGATCAAAATGACCTTTGACAATCACTAAATGTACTACAGAATACTACGTTTACACACACACGCACAAGTTACATGTAAACATTTCAACTTCAGCGTAATAGTCACCACTCCTAAGTACTTTTAAAAGGTCTACTTTTTACTCCTACTTTGAGTAATATTTACAACAGATACTTTTACTCTACTTGCACTCACAGCAAGAAGGTCGCTGATTCGAGCCTCGGCTGGATCAGTTGGCATTTCTGTGTGGAGTTCACATGTTCTTCCTGTGTTCGCGTGGTTTTCCTCCGGGTGCTCCGGTTTCCTCCACAGTCCAAAAACATGTGGGATAGGTGAATTGGTTTAGCTAAATTGTCCGTAGTGTATGAGTGTGAATAAGAGTGTATGGGTGTTTCCCAGTGATGGGTTACAGCTGGAAGGGCTTCTGCTGGCTAAAACATATGCTGGATAAGTTAACGGTTCATTCTGCTGTGGCGATCCCAGATTAATAAAGGGACTAAGCCGAAAATAAAAGTGAATGAATATATATATACAGTATTGAGCACATAGAGTTAAAGTATATACTCTGAAATGTACTCATTCATATGCGATCTTGTTTGCCACTTTATTTAGAACTTGAGGGCAAATGTTTGATTAAAAATGTAGAATTATAAAATGAATATTAGTAAAATATAAAAAACTAACGATTACAGGGCCACTTAATAATCCAAAATATTGTATAATAAAATAAGAACGTAAACATTGTACTTTCAAGATTGCAACTTTTTCCTGATGCTGTTATTCATGTTTCTGCATCCTCTCAATGGCATGTAATATTTTGCTTGTATAAATTATGAAAATGTTTAACCCTAAACAATGTATTTTGTGACACTACATCTCTGTTTCGTTTATTATGAGTATATGAAAAAATAGCCATTTTCTTTTTGTCTATTTATCATTCTTGTATATTTATCTATTTTTAAAAATTTCAGAAATCTCTTACCTCAAATGTTAGAAACAAGTAACTATTGATTTCCATAGTAGGAAAAACAAATAGAAAGTCAGTGGTTACCGGTTTTTCACATTCTTCAAAATTATCTTCTTTTCAGAACAACAACATCAACAAAACTGAGGTTGAGTAAATGATGACAGAATTCAATTTTGAGTGAACTAACCCTTTAAGTGTTGTATGTGATTGACTTTGGAACACTCCCAACAATGTTACCCTAAAATGGGTTTTTGTGAATTTTTAAGTAAATAAAATGAAGTCAGTTTTGATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014101:ENSDART00000144360:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(14.3=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTTATGTGGCAGTGGCAGC
R:
CATATCGCACAGCCCTCCTTC
Band lengths:
297-564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]