RnoINT0169275 @ rn6
Intron Retention
Gene
ENSRNOG00000042380 | Znf442
Description
zinc finger protein 442 [Source:RGD Symbol;Acc:6502699]
Coordinates
chr14:6299713-6300467:+
Coord C1 exon
chr14:6299713-6299864
Coord A exon
chr14:6299865-6300116
Coord C2 exon
chr14:6300117-6300467
Length
252 bp
Sequences
Splice sites
5' ss Seq
AAAATAAAA
5' ss Score
-7
3' ss Seq
AATATCTTCAAAACCATACAAGA
3' ss Score
-19.6
Exon sequences
Seq C1 exon
AGAAGCCCTATGAGTGTAACCAATGTGGTAAAGCCTTTGCTTGTCATAGCTATCTTCAAAGCCATACAAGAACTCATACTGGAGAGAAGCCCTATGAATGTAACCAATGTGGTAAAGTCTTTTCATGGTACAACACTCTGCAAATCCATAAA
Seq A exon
ATAAAACATACGGGAGAGAAGCCCTATAAATGTAACCAATGTGATAAAGCCTTTGCTTATCGTAGCTATCTTCAAAACCATACAAGAACTCATACTGGAGAGAAGCCCTATAAATGTAACCATTGTGGTAAAGTCTTTAAATGGTGCAGCACTCTGCAAAGCCATAAAAGAACACATATTGGAGAGAAGTCCTATGCATGTAACCAATGTGGTAAAGCCTTTGCTTGTCATAAATATCTTCAAAACCATACA
Seq C2 exon
AGAACTCATACTGGAGAGAAGCCCTATGAATGTAACCAATGTGGTAAAGCCTTTGCTCATCACAGCCATCTTCAAAGCCATAAAAGAACACATACTGGAGAGAAGCCCTATGAATGTAACCAATGTGGTAAAGCCTTTGCTCATCACAGCCATCTTCAAAGTCATCAAAGAACACATACCAGAGAGAAGCCCTATGAATGTAACCATTGTGGTAAAGTCTTTACATGGCACAGCACTCTGCAAAGACATAAAAGAACACATACTGGAGAGAAGCCCTATGAATGTAACCATTGTGGTAAAGTCTTTACATGGCACAGCACTCTGCAAAGACATAAAAGAACACATACTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042380:ENSRNOT00000065071:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(53.8=27.5),PF134651=zf-H2C2_2=WD(100=49.0),PF134651=zf-H2C2_2=PU(19.2=9.8)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(73.1=16.2),PF134651=zf-H2C2_2=WD(100=22.2),PF134651=zf-H2C2_2=WD(100=21.4),PF134651=zf-H2C2_2=WD(100=21.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTACAACACTCTGCAAATCCA
R:
AGGGCTTCTCTCCAGTATGTGT
Band lengths:
304-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]