RnoINT0036654 @ rn6
Intron Retention
Gene
ENSRNOG00000013442 | Ciz1
Description
CDKN1A interacting zinc finger protein 1 [Source:RGD Symbol;Acc:1305336]
Coordinates
chr3:11402020-11403689:+
Coord C1 exon
chr3:11402020-11402217
Coord A exon
chr3:11402218-11403564
Coord C2 exon
chr3:11403565-11403689
Length
1347 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GTGGTACATTCATGCTACAGGAG
3' ss Score
4.91
Exon sequences
Seq C1 exon
ATGTGGGGGGCTGGGAGCTCCCTGAAGGTCACCATCCTGCAGAGTAGCAACAGCCGGGCTTTCAACACCACACCCCTCACATCTGGACCTCGCCCTGGGGACTCCGCCTCTGCCACCCCTGCCCTTGCCAGCACACCCTCCAAGCAAAGCCTCCAGTTCTTCTGCTACATCTGCAAGGCCAGCTGCAGCAGCCAGCAG
Seq A exon
GTACTGGGGCAGAGGAGGGGGGCTGGGCCGTCCGGCTTGCCCTTTCTACACTGCACAGTAGCTGCAGCCATAGTGTCTGCATAGGCATAGTTCCTGATCAGCCGGTAGAGCAGAGTTTTACGGTCTAGGAAAACCTGATTCAAATCTGCTGTGACTGGCCATGGAGGTCTCCAGAAGTAAACTCCACCCTTAGGTCTTTTCCTTTTGTGTTCAGTGAGGACAGCCAAGAGCTTCATCACCGCAGTGTGACTTAGGACTCGGCACCTGACACTGAAGTTCTGTGCCCAGCTCAGCCCAAGGAAGTGCAGCTTTACTAATAATAGCAGTTACTTAGGAGGCTGAGTACTAGTAATAGAGTTACGTTGGAGGCTGAGTACTAGTAATAACAGTTACTCAGGAGGCTGAGGCAGGAGGGTAACCTGGTCAACTTAGTGAGAGCCTGTCTCAAAATAAAGTTATTTCAAAAAGAAAAAGGAAGAAAGAAGAAGCTGGGGATATAGCTGAGCCATTGCTTAGCCTGTGAGAGGCAGAATAAATGGATAAATGAGTAGTAGTCTTGGCTGGGACCACCAATTGCTCCAGCTTCGTGGGGGTTCGAAACAGGAAGATCACATGAGCACACGAGTTTCACATTAACCTGGGCAATATGGCAAGAATTCAGTGTCTGTCTTTAAATTAAAAGAAACAAACAATTAAAAATGACTTACTTTCTTTTTTTTTTTTCTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGTGTTTGCTAGGCAAGCGTCTACCACTGAGCTAAATCCCCAACCCCGACTTACTTACTTTCATTTGATGTGTATGACTGGTTCACCCATATGTCTGTGCACCACATGGGTCGATGCCCACAGAGGCCAGGTGAAAGCATCGGAGTCTGTGCAACTGGAGTTACACAGTCATGAGCCACCGTGTGGATGCTAAGACTTGAACCCAGATCCTCAGGAAGAGCAGCCAGTGTTCTTAACCTCTGAGCCATCTCTACAGGCCCCGACCCCTGGTTTCTTTTAATGCCCTTATATTATTACCAGTGGCCATTGTTATCTCTATGACTGCGGTCCTCGTCTGAGCACTGGAGTCGCATTTCTTATCAATGGAGCACTCCCAGAAATGGATATGTATCCCCTCTGTGCCTCAGTTTACCATCCCCGCCCTGGCCTACATTGAGCTGTGTAAAGTAATGCCAGTTGTGGCAATACAACACGGGGGAGAAAGGGAGCCAGGAGGATCAGAGCCACAGGGTGGCCATGACGGTTGGCACTGCCCTTCCCTGGGCTGCAGCTCACGTCCACTTGTGGTACATTCATGCTACAG
Seq C2 exon
GAGTTTCAGGATCACATGTCAGAGGCTCAGCACCAACAGCGGCTTGGGGAAATGCAGCACTCGAGCCAGACCTGCCTGTTGTCCCTGCTGCCCATGCCTCGGGACATCCTGGAGAGAGAAACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013442:ENSRNOT00000037399:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.515 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF127562=zf-C2H2_2=PU(50.0=40.9)
A:
NA
C2:
PF127562=zf-C2H2_2=PD(46.3=59.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTCCCTGAAGGTCACC
R:
TCTGTTTCTCTCTCCAGGATGTCC
Band lengths:
310-1657
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]