HsaINT0185520 @ hg19
Intron Retention
Gene
ENSG00000120784 | ZFP30
Description
zinc finger protein 30 homolog (mouse) [Source:HGNC Symbol;Acc:29555]
Coordinates
chr19:38134166-38135637:-
Coord C1 exon
chr19:38135511-38135637
Coord A exon
chr19:38134265-38135510
Coord C2 exon
chr19:38134166-38134264
Length
1246 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TTCTATTATTTATTTTTAAGCAG
3' ss Score
5.47
Exon sequences
Seq C1 exon
GATTTGGTGATGTTCAGAGATGTGGCTGTAGACTTTTCTCAGGAAGAATGGGAATGCCTGAACTCATATCAGAGGAATTTGTACAGAGATGTGATATTAGAGAACTATAGCAACTTGGTGTCACTGG
Seq A exon
GTAAGCCTAGCATATCTGTGTCAGATAATTTAGACATTCACAGGACTGAATTTCTGGGCTGTCTTTGTTTTTTTCCAAAGACGAAGTCTCGCTGAGTCACCAGGCTGAAGTGCAGTGGCGCAATCTTGGCTTACTGCAACCTCTACCTCCTGGGTTCAAGCGATTCTACTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCACACCACCACACCCAGCTAATTTTTGTATTTTAAGTAGAGACGGGGTTTCACCAGGTTGGCCGGGATGGTCTTGATCTCTTGACCTCATGATCTGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCGTCTGGGCTGTCTTTCTAAAAACTAGCTAAATGTCTGCTTTGTGCTTTGACAGTAAGTACCACTATTAAGCACCTTCATCTTTCTGTATAATTCAGTGACCGTTATATTTTTCTTCGACTTTTCTGTTATTACCGGTCTTTAATGACAGCTGGATATAAATTCTTAGACACTCATGGCAAAACCATTGTCAAAACAATCTGATTTCATACTGCTATGGATGGTCCATGTTATTTGTAACTCATTTACAGTGAGAATAGGAAGACAGAGGTGTCTGGCTCTACATAGCTATTAAAAGAGCTTTTACAGTGTATGTGATGCTGGGTTGAATTGACAGTTTGTTAAAACTCAAGTGGACAGTATTCAGTTTCCTACAACAGACATATTTTAACTGCTTTGTGATTAAGTTTAAAATACATGAATTTGCATTTAATATTGTATGCATATCCTGGCAAGAAACTTATTTTTCTTTAAAAAAAAAATCAAAAAATAGCAAATGTAGTACCTCATGAACATATATGATGGTTAACATGTACCAGGTACTCATCTAAACACTTACATTAAATCGAATCTCACAACAATGCTATATATACGCATTACTGTTATCCCTTTTTCACGTCTGAGAAAAATGAGGTGCAGAGAGATTGAATTAGTTGCTCTACTGACATGGGAAAGAGAGGCAGGATTTGAAACCAGTGCTTTCAACTATTCTTTTCTCTCAAGAGACAGAGCCTGTGTAAGTTTAAATTAAAATAAAACCAGGTCCCTACTTCTGTGTTCTTGTTTTTCCTTGTGATCCTGAAGTAACTCTATGCTATGAATGTTTTTCAATCCTGATAGTCTTCTTTGTTTTGAAGCCTTAAATAAATTCTTTATTATATTCTATTATTTATTTTTAAG
Seq C2 exon
CAGGATGTTCTATTTCTAAGCCAGATGTGATCACCCTATTGGAACAAGGGAAAGAGCCCTGGATGGTTGTGAGGGATGAGAAAAGAAGATGGACTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120784-ZFP30:NM_014898:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGTGATGTTCAGAGATGTGGC
R:
TAGAGTCCATCTTCTTTTCTCATCCC
Band lengths:
222-1468
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)