HsaINT1028182 @ hg38
Intron Retention
Gene
ENSG00000204314 | PRRT1
Description
proline rich transmembrane protein 1 [Source:HGNC Symbol;Acc:HGNC:13943]
Coordinates
chr6:32148359-32149722:-
Coord C1 exon
chr6:32149537-32149722
Coord A exon
chr6:32149399-32149536
Coord C2 exon
chr6:32148359-32149398
Length
138 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CCCCCACCCCTCCTCCGTAGGTG
3' ss Score
11.03
Exon sequences
Seq C1 exon
CCATATGCAGGCGGGACCCCGGGGGGAACAGGAGTGACCTCCACTCTCCCCCCGCCGCCCCAGGGCCCAGGGCTGGCCCTACTGGAGCCGAGGCGCCCGCCACACGACTACATGCCCATCGCGGTGCTGACCACCATCTGTTGCTTCTGGCCTACTGGCATCATTGCCATCTTCAAGGCCGTGCAG
Seq A exon
GTAGGGGGCAGGGGCATACTCGGTTTGGGGGCGGGGACAGGGAGTTCTGGGCGTTCTGGGGACCATCTTAGAGAAAGGCTGAGGCGTTCGAACGAGGCCGCAGCTCTTTGACCTCCTTCCCCCACCCCTCCTCCGTAG
Seq C2 exon
GTGCGCACGGCCTTGGCCCGCGGAGACATGGTGTCGGCCGAGATCGCTTCACGCGAGGCCCGGAACTTCTCCTTCATCTCCCTGGCCGTGGGCATCGCGGCCATGGTGCTCTGTACCATCCTCACCGTAGTCATCATCATCGCCGCGCAGCACCACGAGAACTACTGGGATCCCTAAAAACGCCCCTGGTCCGGCCCCACTCTGCGCCCCTCGATCTCCCAGGCTCTTTCTGCAGTCATACCGCGGACCCAATGGGCGCCCTGCACACCCGTTTCTGGGGCCGTCAGACTTGGATACATCGTAAACTCCGCCTCCACGGAACGTCTCGCCTTGCGAGCAAGCTCGGAATCCAGTTCCTCAGGAACCCCTCCAAAACCCACACCCCCAGGGACGCCGCTTTCCGGGATCCCGGCCAAACGCCGGACCCTCAGTCGCTCCAGGCCCCCTCACCCTCAAAGTGTAGCGCCCCCAACCGAGCAACCTCGGTTTGGTCCCTAAAACCCCGCCTCCTCTATAAGCACCGCCCCAGCTCTGACAAAACCCCGCCTCCAGGTCGGCAGGCTCCGCCTTCTTTTCTTCTCCGCGGGGTGATTCAGTCCAGTGATTGGGTTTGTGGCTCCAGGCCTCGCCCACAGACGGACAGACCCCTCCCTTTCTTCCGGCAAAAGGACCGAGCCCTGGGGTAGTAAGGCCCCCACACTCCTGTTTTTTGCAAGTACATTTTTGTCCCTCCTCCACCCAGGTATCTGCCTATTTTCTTGCTAATCCCAGAACCTTTCCTTTTGCTTTTTTTAAGGACATTTGGGAAGTTCCTGGTGTAGGACCCTTCTCCCTGGGATAAGAAACCTGCCTGTAAACGCTCTGTAAATACTCCCTTCCACCCATCCCAGCCCCTGGGCAGCCGGGCAGAAGGGAATCCAGGCTATGGACCTCCCAAGTCCCCGCTCCCCGCTCCCCTCGGCGGCCCCGCCTTGTTCTGATCTGTGTGTGAGTGTGTGTGAACTTCTGAAAGACAATATTAAAGAGACTTAGTTGATTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204314:ENST00000375150:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.403 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF045057=Dispanin=PU(54.4=79.0)
A:
NA
C2:
PF045057=Dispanin=PD(43.3=66.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGACCACCATCTGTTGCTT
R:
GGGCGTTTTTAGGGATCCCAG
Band lengths:
246-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains