RnoINT0036653 @ rn6
Intron Retention
Gene
ENSRNOG00000013442 | Ciz1
Description
CDKN1A interacting zinc finger protein 1 [Source:RGD Symbol;Acc:1305336]
Coordinates
chr3:11401013-11402217:+
Coord C1 exon
chr3:11401013-11401134
Coord A exon
chr3:11401135-11402019
Coord C2 exon
chr3:11402020-11402217
Length
885 bp
Sequences
Splice sites
5' ss Seq
GGGGTGCGT
5' ss Score
5.27
3' ss Seq
TGTCTCTGCGTCTGCTGTAGATG
3' ss Score
9.69
Exon sequences
Seq C1 exon
ACCCAGAGGAGACCTTGCCAGAACCAGTAAGTGCCCAGAGCAGTGAAGACAGGAGCCAAGAGCCGTCAGCTGGTGGCCTGGATGTGGGAGAATGTGAAAAGAGAGCAGGAGAAGTGCTGGGG
Seq A exon
GTGCGTAGAGACCAGCGTGAATACCAGAGGGAGTAAGCCTGCAGCGGCTTGGTGTCTGCTTGCCCCAGGCTACCTAAGGATCCCTCACGTGTTTCCCCATGTGTGGAAGGACAGCAGCCTTGTGCCTGGTGGCATGGGTGAGCCACATGGTGGTTCCTCTGTCATCGTATCTTTTTTCTTTTTCCTTTTTTTTTCTTTTCTTTTTTTTCGGAGCTGGGGACCGAACCCAGGACCTTGCGCTTGCTAAGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTGTATCTTTTTTCTTAAGATCTTGATGTGCTTTTGGTGGTAAAAGTCCTTTCTGGTCCGGCCAACTTCACACTAGACCCACCAGTCCTTCTCGCAGTGATGCCATTTTAGTGGAAACAGTACCTTTGTAAAAGGCTCCTTGTGGGACTCAGGTCCCAACGCTACCATATAACAAAACTTAAGTCAACCTCTTTCCTTCCTCGGGTCTGTTTCCCCATCCATCATGTGTTTGGTGAGGTGGGTTGGACTTCGAATTAACCAGAGCTAGGTCAGGAGTGGTGCTATACATCTTTTTTTTTTTTTTTTTTTTGGGTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGGTGCTATACATCTTTAATCCAGCCCTAGGGAGGCAGAGGCTGGCTGATCTCTGCAAGTCTCAGGCCAGCCTGGTCTACATAGTGAGACATTTCTATTCGATCTAGGTTCAAATCCTAGCTGTGGTATTCTCTGTGTAGGTTTGGGCAGTCACGGAACCTAACCTAACCTAGAGGGTAGAAACTCTGTCTCTGCGTCTGCTGTAG
Seq C2 exon
ATGTGGGGGGCTGGGAGCTCCCTGAAGGTCACCATCCTGCAGAGTAGCAACAGCCGGGCTTTCAACACCACACCCCTCACATCTGGACCTCGCCCTGGGGACTCCGCCTCTGCCACCCCTGCCCTTGCCAGCACACCCTCCAAGCAAAGCCTCCAGTTCTTCTGCTACATCTGCAAGGCCAGCTGCAGCAGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013442:ENSRNOT00000037399:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.951 A=NA C2=0.515
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127562=zf-C2H2_2=PU(50.0=40.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAGGAGACCTTGCCAGAA
R:
CTGCTGCAGCTGGCCTTG
Band lengths:
311-1196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]