DreINT0022887 @ danRer10
Intron Retention
Gene
ENSDARG00000056781 | ZAN
Description
zonadhesin (gene/pseudogene) [Source:HGNC Symbol;Acc:HGNC:12857]
Coordinates
chr7:26079158-26080544:+
Coord C1 exon
chr7:26079158-26079399
Coord A exon
chr7:26079400-26080379
Coord C2 exon
chr7:26080380-26080544
Length
980 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ACTCTTTTCTATTCTAATAGTTG
3' ss Score
6.67
Exon sequences
Seq C1 exon
GAGTGGGCATTTGCCACATCGCTGGGGATCCTCACTATTACACCTTCGATGGCATCATGCACACCTACATGGGCACCTGTACTTACACACTGGTGGAAGTGTGCAACACCTCTATGGTGACACCCTTCACCATTGTGGCCAAGAACGAAGAGCGCGGCCAACCAGAAGCTTCATATGTTCGCTCTGTGACCGTCTACCTGCCCACTGCCAACATCACCATCAGCAAGAGTGGACGAGTTCTG
Seq A exon
GTGAGTGGCAGAAAAAAGATGAAGAAATTATTGCATTTGTCTTCTTCTGATTAGACTTTGGGGTAAAACTTTACAATAAAAGTATTAACATGAACAGTTTAACACAGGAGTTCATGAGTAGTTAATGTGATATGCCCCTCCAAGTAAAGTCATGATATAATTATAGATTAACAGCTTATGAGATCTTGATGGTTACATTTAGCTTAAGCCTAAATGTTAATTAATACATTAACTAGCATGAACTAACAAGTAATTAAGGTAGCCATTATTTACACATTAAAGTCACGTGACTCATGTTGTAGTTAAAGTTAGTTCATGATTAACAGATCCATTAATTCATCATTAATTCAAAATAATGTTAAGTTTGCATATTAATTCATCATTAGTCATGTACTGTTATTGTAAAGTGTTACCTACTTTGGAATACAACTGTCATATGTGACCCTGGACCACAAAAAGTCTTATACCCAGTCTTGTTTTGCCTGGGTACAGCTTTGGCAATATCAAAATATATATTCACTAAATTATTTATTTTCCTTTAATGCCAAAAATCATTAGGATGTAAAATCATTAGGATTTAAAATAAAGATCAAGTAAAGATCTCATCCCTTGAAGATATTTAGTCAATTTTCTACTGTAAATGCCTCACAATATTTCTAAAAAAAAAATAATCATTTGGATAACTTTCATTTTTTAAATATATATTTTTTACTTTCTTAATACTTCTATTTAACTGAACTCTCAGATTCCAAATAGTTGTTTCTCTGCCAAATATTTTCCTATCCTAACATCCCATTTGTCAGTGTCAAAGGTCATTTATTCAGCTTTCAGATGATGTATAATAGAATTTTAAAAAATCAACACTTATGACTGATTTTGTGATCGATAATCACATATAATAATAGATAATATTTCAAACTGTATGAATTTATTGATCATTGTGCTAAATCTCTTACTTGTACTCTTTTCTATTCTAATAG
Seq C2 exon
TTGAATGAACGCAGAGTAAAAACTCCATATGACATTAATGTAGCCAAATCACGAGTGTTTACCAGTGGAGTGAACACCATACTAGACACGGACTTCGGCCTGATTGTGAAGTTTGATGGAGTGCACCATGTTGAGATCACAGTGCCTGGAGACTATTTTAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056781:ENSDART00000159818:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(49.4=93.8)
A:
NA
C2:
PF0009420=VWD=FE(35.1=100)
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:
ACACCTTCGATGGCATCATGC
R:
GGCACTGTGATCTCAACATGGT
Band lengths:
349-1329
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]