HsaINT0188272 @ hg19
Intron Retention
Gene
ENSG00000139651 | ZNF740
Description
zinc finger protein 740 [Source:HGNC Symbol;Acc:27465]
Coordinates
chr12:53579171-53579861:+
Coord C1 exon
chr12:53579171-53579260
Coord A exon
chr12:53579261-53579737
Coord C2 exon
chr12:53579738-53579861
Length
477 bp
Sequences
Splice sites
5' ss Seq
AAGGCAGGT
5' ss Score
2.53
3' ss Seq
TGCCTGATTATTGCCCCCAGGTG
3' ss Score
8.85
Exon sequences
Seq C1 exon
GGTCACCGAAAAGACAGTGATAAGTCCCGGAGCCGCAAAGATGATGACAGCTTGTCTGAGGCCTCTCATTCAAAAAAGACTGTTAAAAAG
Seq A exon
GCAGGTAATGGGGTGATCCCCCAAACTCATACAGTTTGGTAATGGGGTAATATTCCTCCTTCTTCCCTCTACCATGTAACCTGGAGCTTTCCCTAGATGCTTTGATCTCTGATAGCCAGTGAGTGAGTCCCCCAGATTTCATCCAGAGACTACCTTGGTAGTTGATCTCCTGCCTTGCTGGAACAGTAATGGTACAGGTTGGGGAGCATGAGATCCCAGATCCCGAGGCATGGGAGCAGGCAGGCTCCAGCTCAAGTCATACTCAGACTGCTGGGTTTGACAGGATAGACAGCTTACCCACTCCACCTCCTTCCCCAAAGGGTCTCTTACCTCCATGGAGTACAGGAGATGGCAGCACCTTTAGACAGCATCAGAGAGGTTCCTTTCTCCAACAGCTGGAAGTGGACCCAGAGTAGAACAGTGTCTCCAGGAAGAGGGCAGTGGTGGCCTCATGACATGCCTGATTATTGCCCCCAG
Seq C2 exon
GTGGTGGTAGTGGAACAAAATGGTTCTTTTCAAGTAAAGATTCCCAAAAATTTTGTTTGTGAACACTGCTTTGGAGCCTTTCGGAGCAGTTACCACCTAAAGAGGCACATCCTTATTCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139651-ZNF740:NM_001004304:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.767 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF154431=DUF4630=FE(27.9=100)
A:
NA
C2:
PF154431=DUF4630=PD(19.2=47.6),PF127602=Zn_Tnp_IS1595=PU(71.1=76.2),PF134651=zf-H2C2_2=PU(38.5=23.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCACCGAAAAGACAGTGAT
R:
AGGATGTGCCTCTTTAGGTGGT
Band lengths:
203-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
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)