HsaINT0115368 @ hg38
Intron Retention
Gene
ENSG00000168743 | NPNT
Description
nephronectin [Source:HGNC Symbol;Acc:HGNC:27405]
Coordinates
chr4:105938301-105940209:+
Coord C1 exon
chr4:105938301-105938420
Coord A exon
chr4:105938421-105940074
Coord C2 exon
chr4:105940075-105940209
Length
1654 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CTATTGACTTATGTTTCTAGATG
3' ss Score
7.98
Exon sequences
Seq C1 exon
GTGCCCTGACCTGCTCCATGGCAAACTGTCAGTATGGCTGTGATGTTGTTAAAGGACAAATACGGTGCCAGTGCCCATCCCCTGGCCTGCAGCTGGCTCCTGATGGGAGGACCTGTGTAG
Seq A exon
GTGAGTTGTAAAATCAAGCATCTCTGTCAGCAGCCTCTGTAGGATAAAGGGAGAAAGTGAAAGGTGATGGGAATAAGGAAAAAAAAGGCAATTACTTACATCAGATAATTAGCTATCGTTCAGAAGATATCAGATGTCTCAGAAGAGGACATCTCTGTGAATGGATAATGGGAGCGTTGTTTTTTAAAAAATGAGAAATAGGAGGAGGCCTCAGGCAGAGGGAACCCTATGTGCAAAGACACTGCAGTTCAGAGGAGCACAATGTTTAGGGAAACGAGAAGAGCTCAGTATTCCTAGAATGTAAGCGGCAAGGGTGAGCAATGAGTGATGAAGCTGAATAGCTAGATTGTATGTGTTGTTCTTCAGGCCTCAGATTTTTTTCTGGTAAATTAGGAAGGCAGTGTAGGATTGAGAGTCTGGACTTTGGTTTTAAACCTGGCTCTTCCATGTACTAGATATGTAACCTTAGGCAAGAGACTTTGTTGCTTTGAGCTTGGGTCTTCTTATCTTTAAAATGGAAATAATACCACATAGAACTGGTAGGAAGATTGAATGAGATCATGGATGCAAAGAGCTTAGCACAATACCTAGCATGTAATAAGCCTTGAATGAATGGAAGTGTTTGGTGATTAGAGTTATTTACTGAGTAATTTCTATACTCCAGACACTGTGCTGAGTGCTAGGATATATAGCAGTGGCCTAAGCACACAAGATTTTGATCCCCACAAAGCTGACATGCTAATGGGGGAGACAGAAAAGAAACAAATACCCCATAAAATTACAGACAATGCCAAGTGTTAACATGAGGTACTGAGAGAAAAACAGAATGTGTCTATTAGCCTTAAGGTAAGACCTGTATCATTAGCCATGTGAAGAAACAGCCAAGCAGCTGAAGACATTGCAGGGCACTGCGGTGAGAGAGAGGTTGGCCTGTGTGAGGTTTTTCAAGGAAGAAGGTCCATGTAGCTCAAGTACAGGGTGTGAGTATGAGGGGTGGTGGCTGGAGATATAATGGGTGAAGTAGGTGAGGGTGATTTGTTGCAGGGCCTTCAAGGACACAGGGGAGGAATGTGGATTTAATTCAAAGTGCAAGTAGAAATAGTTAAAAGATTTTGAGCACAGTAATGATTTGATTGTATGTTTTAATGGAATCATTTTGACAGTTGGGTTGGATATGCTTTGGAGGGGGTAAGTAACAGCAAAAGGAACTGTTTTGAGGCTTTTGTAACAGTCTAACCCAAGAGATGGTGGCTTCAAATAGGGTAGTGGTGGTGGATTAAGAGAAAAGTAGACAGATTCAAATACTTTTTTTTAGAGGTAGAATTAACTGGACTTGATGATATGGGAGTTAAAGGAAAGAGGGTTGTTTCTAATTCAAGAATGACTCATGTTTCTAGTTTAAGCAACTTGGTAGATACAGGTGCAGTATGTGCTAATATATAGAGTGCAAGAAAATAATAACTTGGCTTAGAAGGCTGGGTTGAAATTTGGATATGTGGAATTTATGTTGCCTGTAGGGACAACCAGCTAGATACCGTTTATGATGAGCCACTATATGCTAGGCAACCATTTGTAGTCAGTTATTTATTTTGAAACCCACTCTGTCTTAACATACCCTTGCTCTTCCTAAAATGCTATTGACTTATGTTTCTAG
Seq C2 exon
ATGTTGATGAATGTGCTACAGGAAGAGCCTCCTGCCCTAGATTTAGGCAATGTGTCAACACTTTTGGGAGCTACATCTGCAAGTGTCATAAAGGCTTCGATCTCATGTATATTGGAGGCAAATATCAATGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168743:ENST00000379987:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.001 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=PD(8.9=9.8),PF146701=FXa_inhibition=PD(92.7=92.7),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.7),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCTGACCTGCTCCATG
R:
CATGACATTGATATTTGCCTCCA
Band lengths:
254-1908
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