HsaINT0030821 @ hg19
Intron Retention
Gene
ENSG00000177675 | CD163L1
Description
CD163 molecule-like 1 [Source:HGNC Symbol;Acc:30375]
Coordinates
chr12:7521529-7522261:-
Coord C1 exon
chr12:7521953-7522261
Coord A exon
chr12:7521562-7521952
Coord C2 exon
chr12:7521529-7521561
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-CD163L1:NM_174941:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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:
PF151791=Myc_target_1=PU(23.4=84.6),PF0042914=TLV_coat=PU(25.0=92.3),PF151641=WBS28=PU(15.4=61.5)
Associated events
Conservation
Rat
(rn6)
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]
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)