HsaINT1006799 @ hg38
Intron Retention
Gene
ENSG00000177675 | CD163L1
Description
CD163 molecule like 1 [Source:HGNC Symbol;Acc:HGNC:30375]
Coordinates
chr12:7368933-7369665:-
Coord C1 exon
chr12:7369357-7369665
Coord A exon
chr12:7368966-7369356
Coord C2 exon
chr12:7368933-7368965
Length
391 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TCTCTCTCTCTCTCTCTCAGGAC
3' ss Score
13.18
Exon sequences
Seq C1 exon
ATAGAATAAGAGTGCGTGGAGGAGACACCGAGTGCTCTGGGAGAGTGGAGATCTGGCACGCAGGCTCCTGGGGCACAGTGTGTGATGACTCCTGGGACCTGGCCGAGGCGGAAGTGGTGTGTCAGCAGCTGGGCTGTGGCTCTGCTCTGGCTGCCCTGAGGGACGCTTCGTTTGGCCAGGGAACTGGAACCATCTGGTTGGATGACATGCGGTGCAAAGGAAATGAGTCATTTCTATGGGACTGTCACGCCAAACCCTGGGGACAGAGTGACTGTGGACACAAGGAAGATGCTGGCGTGAGGTGCTCTG
Seq A exon
GTAAGTGTGAAAAGGCTGCACTTAAACTGAGCCTCCCACTAATGGTAGAGAACACTGGGAAACAGGCTCACTCAGAGAGTTGAGCTGAAGATACTAGGATTTCTTGTTGAAGAATGAAAGGCTATGTTAAACTAACGTTTTTCCACAACTAAATAAGATAATGTTCCACTGTTATCTAAAATAGCCCCCATAATTTTGAGGGAAGAAAGGTGGATTTGGCCTTAGACTTTGAAGCAAGAGGATTCTGACTGATATTTTAAATGACATCCAGTATTCACAGGAGATGTTAAAAGGATATTTAAATGACATCCGATAATCGCAGGAGATGTAAAAAGAAATACCCAGTTCCTTTTCGTTCATTTACGTCTCTCTCTCTCTCTCTCTCTCTCAG
Seq C2 exon
GACAGTCGCTGAAATCACTGAATGCCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177675:ENST00000313599:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
PF151641=WBS28=PU(10.0=53.8)
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAGAATAAGAGTGCGTGGAGGAGA
R:
CTGAGGAGGCATTCAGTGATTTCA
Band lengths:
342-733
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains