HsaINT0082137 @ hg19
Intron Retention
Gene
ENSG00000143319 | ISG20L2
Description
interferon stimulated exonuclease gene 20kDa-like 2 [Source:HGNC Symbol;Acc:25745]
Coordinates
chr1:156692413-156694140:-
Coord C1 exon
chr1:156693940-156694140
Coord A exon
chr1:156693255-156693939
Coord C2 exon
chr1:156692413-156693254
Length
685 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
TGTCTTCCTTGCTTGCTCAGGTT
3' ss Score
9.83
Exon sequences
Seq C1 exon
ATCTTGAAGATACTCACAGGGAAGATAGTGGTGGGGCATGCCATCCACAACGACTTCAAAGCCCTTCAGTACTTTCACCCCAAGTCCCTCACCCGTGACACCTCCCATATCCCCCCCCTCAACCGGAAGGCTGACTGCCCGGAGAATGCCACCATGTCTCTGAAGCATCTCACCAAGAAGCTGCTAAACCGGGATATCCAG
Seq A exon
GTAGCATCTCCCCACATCCCCCGCCCCCATCTTGGACATGGCTCTCGTTGATGCCCCTAGCCAGACTCTGATCTCAGAAGTCCTGTGGTTGTAGAGATCCAGGTGGGCTGCTGTGATGGGAAGAGCTCCATCTGTACACAGGATAATAATTCCTGTTGTCTACCTCATAGAATGTTTCAAAGTGTGCTTTGGAAAAGGGAAAAAGTCCTAAGTAGATATAAAACCCTAACTAAGGAAGAAAGCAGGTAGCAGTGGTGGTCCAAGAGACCGTGTAGTGGATGCAAGGACCGCTCGTATTTTACACGCTATATTTCAGCAAAGGGTGGCCCATCTGGCAGGAAGATGGGGACATATGTCACATATAGAGCAGTTAAGGAACTAGGGAAAGTGGAAGACTCAGAAGACCTGTCTTTGACCTGGTATGTTCTATCTCTACAGAACCTAATATGGCTTATACATACTGCCACAGAAAGGACTGAGGTAGACAGTGGCAAAGACTTCCTAGGAGTTGAACCCCTGAAATTACATAAGGAGTAGGACCCCACCAGAATTCTGTCTTTGTAGGCTGCTGACTGCAGAAGAAACTGTGTAGCGGAGGCAGGGGGAAGAGGAGTACAGAGAGTACACTGGGAAGGAAGAAACGGTTTCTTTTCTCTTCATGCTCTTGTCTTCCTTGCTTGCTCAG
Seq C2 exon
GTTGGGAAGAGCGGACATTCCTCTGTGGAAGATGCCCAGGCCACCATGGAGCTATATAAGTTGGTTGAAGTCGAGTGGGAAGAGCACCTAGCCCGGAATCCCCCTACAGACTAGTGGCAGTGGGGACGCTGGTGATATGAGGAGGCAGAGGCAGCACCCAGGAGAAACAGGGCAGTGGACCAATGGACAGCTCCACCAGCTCCACATCTTTGGAAGCTAGATTTGGGGAGAGAGAAGCTCTACCCCAGACTTAATACCCATTGAAATTTCACCTCAGGTGTTGTGTCCTGTGTCTGGTTAAGTGTCCCATGGAAGGGGAAAGCCTTCACGTCAGAACCCAACCCTATACCTTTTACTTCTTAAATGGTGCTAACCACAGGTGTCCCAGGGTGCTCTGTGCCAGTTAAGATTTTTAACTTTCAAGGGGCAGGGCATACTGGGAAATGTAGTTTCCCAAACTGCCTTATCACTTGGGTGGACATATGTCTCCTTTTATGCCTTTTGGTCTTGAGTAATTAACAGCATCCTCTTCCACGCTCAGAAGTGTTCTGGTTGGGGCCAGGCATGGTGGCTCACACCTGTAGTCCCAACACTTAGGGAGGCCGAGGCGGGCGGATCACCTGAGATCAGGAGTTCAAGACCAGCCTGGCCAACATGGCGAATTCCCGTTCTCTACTAAAAATACAAAAAATGTGTGGGGTGTGGTGGCAGGAGCCTGTAATCCTAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAGCCCAGGAGGCGGAGATTGCAGTGAGCCGAGATCGTGTCACTGCACTCCAGCCTGGGTGACAAGAGTGAGACTCCGTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143319-ISG20L2:NM_030980:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.297
Domain overlap (PFAM):
C1:
PF0092919=RNase_T=FE(42.3=100)
A:
NA
C2:
PF0092919=RNase_T=PD(11.5=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACAACGACTTCAAAGCCC
R:
GAGCTGTCCATTGGTCCACTG
Band lengths:
351-1036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)