HsaINT0016709 @ hg38
Intron Retention
Gene
ENSG00000117523 | PRRC2C
Description
proline rich coiled-coil 2C [Source:HGNC Symbol;Acc:HGNC:24903]
Coordinates
chr1:171512032-171513172:+
Coord C1 exon
chr1:171512032-171512200
Coord A exon
chr1:171512201-171512994
Coord C2 exon
chr1:171512995-171513172
Length
794 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGATGTTATTGATCTTTAGTTG
3' ss Score
5.35
Exon sequences
Seq C1 exon
GACTGGGGTTTTAAGGGGTGTGGCAGGAGGTTTTGGACTCGATGAGTTTCCACCGAAATGTCGGAGAAGTCAGGCCAGAGCACAAAAGCAAAGGATGGGAAAAAGTATGCAACACTCAGTTTATTTAATACTTACAAGGGGAAATCATTAGAAACACAGAAAACCACAG
Seq A exon
GTGAGTAAAATCAAGTGACACTTATGTTTTTCATGGTTTGTTTTGTTACTATAAGTGATACACCTGCTGCTATGAGAAGCTAGGATGTACCCAAGTTAATACAATGCTATTTACATTTGCGTTTTTATGCATGCACACATTTTTCAGAGGATATGTGATAAACATCTTATAATTGAAAATTTATACTTTCATAGAGCCCTTTAAAAATATTTTTGTTTTTCTCTGTTGTCAGCAGAAAAAAGGTAGAACTGTGTGGCTCTAAAGGGGAAACTCAGTCAATGAGATTGATAGGCACAGACCTATATATTAGTGGGAATTTAGTATCTTTTTAATTATAGACTAGAGAAAGTCTTATGTTTCGTGTGTGGGGGTGTGTGTGTGTGTGTGTTAGATACTGTGACCTAGTGAATATAGTGAAAACTGAAAATCATGCATGGCATATTAACAGTATTCTTTATGAACATACAGTCAATACATTTATTCTCTAACATTCTAAGTTTTGAGTTTGAAATAGATTCTCTGAAAAAATATCAGTATTATCAATGTTTTCTGTAGTGTGTTGAATTGCATTGTTAAATTTTTTAAGGAATCTGTTAAATGCTGTTAAATGGCTTGATTTCTACACTGAAATGTGTTGCAGGTGTGTAGCTTAGTTTTAAAATTATTATTTTAAAATACATGAATGAAAATCATTCAGGGATTGCATTAATTCCTATTGTTTTTCTATATTGTTTGAGGAATAAAATGGGTAATAAAATAGATGTTCTAAGAAAGTTGATGTTATTGATCTTTAG
Seq C2 exon
TTGCAGCTCGACATGGATTACAGAGTCTTGGAAAAGTCGGTATTTCACGGCGTATGCCTCCACCTGCTAACCTCCCAAGTCTTAAAGCAGAAAACAAAGGCAATGATCCTAATGTAAACATTGTACCTAAAGATGGCACAGGGTGGGCATCAAAACAAGAGCAACATGAAGAAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117523:ENST00000367742:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.974 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF070016=BAT2_N=PU(22.6=97.4)
A:
NA
C2:
PF070016=BAT2_N=FE(35.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGGTTTTAAGGGGTGTGG
R:
TCTTCTTCATGTTGCTCTTGTTTTGA
Band lengths:
342-1136
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains