HsaINT0131462 @ hg19
Intron Retention
Gene
ENSG00000138738 | PRDM5
Description
PR domain containing 5 [Source:HGNC Symbol;Acc:9349]
Coordinates
chr4:121739508-121742500:-
Coord C1 exon
chr4:121742326-121742500
Coord A exon
chr4:121739683-121742325
Coord C2 exon
chr4:121739508-121739682
Length
2643 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
GTTTCCTTGTGAATGTGCAGATC
3' ss Score
6.92
Exon sequences
Seq C1 exon
GAAGGAGAAAACATTTTCTATTTGGCAGTTGAAGATATAGAAACAGACACGGAGCTTCTGATTGGCTACCTGGATAGTGACATGGAGGCTGAGGAGGAAGAACAGCAAATTATGACAGTCATCAAAGAAGGGGAAGTTGAAAATTCTAGAAGACAATCAACAGCGGGCAGAAAAG
Seq A exon
GTATTGCATCTTTAATTGGTGATCTGGGAGAAGAAAAGTTGTAGAAAAAAGTGTAGTTTAAACTGTGGTTGAATTATAGTTGCCTTGTAATATGGCATTCTCAAATAAAGTTAGTTTTTGTCAAAATTATTCTCGAGGGTATCCTGTGGTGGACTCATCTTTGTTACAGCAGGAAAAGTATTTTGGGAGTGGGTGATGGATGTACCCTATAGGACTGCCTAGGCCGCAGGCAGGGCTGCATTGCTAGGGCAGCTCCCGGCTCTCACTGCTCTCACTGGCGCATTGGGGTAATGAGTAGTGAGGATTTTTATAGTCTTGCCATAGCTCTGCCACTAATCAGTCTTGTAACGTTGGGCAAGTTGCTGACTTTCTGAGACTTTACTTTCTCATCTGCATATAGGAAAAGGTGAGAGTGGAGGTGAGGTACACAAGAGAGCCTGCTGGATCCGAAGGGGATTGATTCCTCTTGTTTGGGATCTTTTGGGAACCTGCAGCTTCTTGGCATCTCTTTCTGTTCTGATCACAGAAGCCTGGAGGATTGCTAGGTTGCCCTAGTGTGGTTACCAAAAACTTTCAGTGACCGTAGGTCAGACCTTCCTCAGTCAATACTGCAGCCACTTGCTTGTTAACTGCCAGGGAATAATCAATTATTATTGGCCTTGTTTCTATTATGTTGTGTTTTACTCCTAAGGGAAATTTAAGGGATATATGAATGATGCTATAGGTATTCACATTTTGTAATAGGCCTCGTCTTTATCCTTTCAGGCTGTTATAACAAAATACTTTAGACTAGATACTTGGTAAGCAGCAGAAATTTATTGCTTACGTTTCTGGAGCCTAGGAAGTCTATCAAGGTGCCAGCAGATTTGGTGTCTGGTGAGGGCCCGTTTCTAATTAGATAGCACCTTCTAGCTGTGTCCTCATGTGACAGAAGGGACAAGCAAGCTCTCTTGGGCTTCTTTTACAAGGGCATTAAGCCCATACATGAGGACACAGTGCTCATAACCTAATCATCTCCTAAAGGGCCCACCTCTTAATACAATTCCATTGCGGTTTCAGTTTCAACGTATGAATTTTGGGGATTCACGAACATTCAGACCATAGCAGGCTGATACTTACTATACAGTACTTTTCCATTTTGTGTAGCAAAGCCACTTCAGAAGTGATACTGGTTTCATTAGTCAAAGTGGTAGTATGCTTTTCCTGTACTTTTTCTGTTCTAACTGCATGTTATTGGCTGAGAAAGTGTGAACATTCTGTCACCATTGCCAGCTTATGCTTCTGTTTCTTTATTTTAGTTGAATTATTTAAGGGGAAGATAAGGACAGGCTTATATGCATTATGCTATTTGGAATATCATATTTTGGGTGATGGGAATTATTTCTGTGTTATTCTGTGTTTTCTTTGTTTTTGTATTTTATTTTTTCCCTGTTGTCCCCAGGGCAAGTTATTTTATCCATTATTTTAATTTAAAAATAAGTAATCTACTTACCTATTACTGCCCTGATTTCTGCTTTAGTTATTAAAATACCAGTTTTCATTATCTTTGTAAAAAGAATCAACAGAAACTTAAACAGAATTTTTTAAACACATGAACCAAGCACTTGCATTGTGGCTATTTTGGTTTTTTTAAAATTTTATTTTATTATTATTATACTTTAAGTTTTAGGGTACATGTGCACAATGTGCAGGTTTGTTACATATGTATACATGTGCCATGTGCCATGTGCCATGGCTATTTTTATTTTAGAATTCTTAGTTTTATTTAGAAAAGCAAAGAAACAAAATAAAAACAAACAGCAAAAGAAACAAGCCACCCAAATGTCTAACAATGAAGAGTTTGGTTAAATAAATTGTGGTACTTTAAGTTTAAAAATATGCCAACATTTGACTTGAGAAGATGTTAAATGGGAAAACATATAAAATTGTATATAAAGTATGATCCCAAATTTACCTCTTCTTAGACTGCGCATAAAATATGTATGCACTAAAGGCAAGTCAGGCTTGCCAGTAATATTATGACAGTTGTCTCTTCCTGATGGGATTATTGGTGTTTTTTATTTTCTGCATTTTCTAAGTCTAATTTTATTTTATAATCAGAAACAAATGTGTAATTTAAATAGCACGCTGAGAAATTTGGTCAGACCTGCACCAGTCTATATGGGACCGTGTAGCATAATTCACTCTACTAGCTTAATCAGCACTGTTTTTATGACCTTGGTCTTTTTTCACATGTATGTGAGATTCTCCTTGGTAATTCAATATAGTTTGCATCAGTTGGATTTTTCTCCTTGTGAAGGTAAAAATGAGCTAAAAATGACCAATTTCAGGAATAGCTTTTGTTTTCTAATTTAACATTTTGATCTGAAAAGTTAACATTATAGGATGAATTAAATAAGGAATTTGACTTTGTATTAATTTGGTGAAATACAAGTGATTTTGAAAATAATGTATTTCTCTCTAGTAACACTTGCTATTATTTTTTTGTGGCCAAATACTATTAATATTTATAGTGATAATAAGAATTTATTCATATGGTATCATTAAGCACAATTAATTAATTAATTTAAAATGAGAGCAAAACTGAGCATTTCTTGGCTCTGAATTTTTGTCTCATGAATATGTTTCCTTGTGAATGTGCAG
Seq C2 exon
ATCGCCTTGGCTGTAAAGAGGACTATGCTTGTCCTCAATGTGAATCGAGTTTTACCAGTGAGGATATTCTTGCTGAGCATCTCCAGACATTGCACCAGAAACCCACAGAGGAGAAAGAATTTAAGTGCAAGAACTGTGGGAAGAAATTCCCAGTTAAGCAGGCTTTGCAAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138738-PRDM5:NM_018699:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.468 A=NA C2=0.073
Domain overlap (PFAM):
C1:
PF100834=DUF2321=PU(0.1=0.0)
A:
NA
C2:
PF100834=DUF2321=FE(69.9=100),PF138941=zf-C2H2_4=WD(100=40.7),PF047079=PRELI=PU(54.7=88.1),PF0396611=Trm112p=WD(100=81.4),PF0009621=zf-C2H2=PU(78.3=30.5)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)