GgaINT0112120 @ galGal4
Intron Retention
Gene
ENSGALG00000014720 | CD163L1
Description
CD163 molecule-like 1 [Source:HGNC Symbol;Acc:HGNC:30375]
Coordinates
chr1:77261820-77262665:-
Coord C1 exon
chr1:77262351-77262665
Coord A exon
chr1:77261849-77262350
Coord C2 exon
chr1:77261820-77261848
Length
502 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAT
5' ss Score
6.06
3' ss Seq
AATTTTTAGATCACATTCAGAAA
3' ss Score
-0.09
Exon sequences
Seq C1 exon
AGTTCCTGTCTCTGAGGCTGGCGAATGGCAGTGGCTGTGCTGGACGGCTAGAAGTTTTCTACAATGGGACATGGGGGAGCATTTGCTCCAATCGTATGTCTCAACTCACTGCAGTAACTGTATGCAAACACTTGAACTGTGGAGACGGTGGGGAAATTGAAAGAGATTTCAAATATGGCAGAGGTTCTGGGCCCACGTGGCTGGATCACATTGAGTGCGCTGAGCAACACAGCTCTCTCTGGCAATGTCAGTCAGACCCCTGGGATCCTCAGTCATGTGATACCCGAGCAGAAGAGACCCATATTTCTTGCTCTG
Seq A exon
GTAAATACAAATGCACCCGCGCGGTACCTCCCAAACACACATACATCTGCACATGCATACATGGACAATGCAGTGCTTACCTCATGTTTATTTGTTTCCAGTTTATATTACTTTCAGTTTCATGAAACTTGCGCAAACGTTTTGTCTACATCTGCTGAAAATGAGTAAATTAAAATGCTATCAGTGTTAAAATCCAAGGGAAGCCCCTGACAGGATGCTGCCATTGCTTATCTGTGCATTAAAAATCTGTGAAATGCAATTAGTCTGTGAGATTTCAGCTAAGATGAGACTATTCAAGAAGACTAAGGACATATATGTATTTCTATATGTATGGAGGCAAAGCAATGCTTGTATACATCTAAATACATATGCATGCACGTAACCACGTGCAAGTATATGTTAGTTCAGTTCTGAATTATCATTTCTGGTGCCTGCTGTTAGGACAGTATTTCGTATCTGTGGGTTCTCACTGAAATGTAAATAATTTTTAGATCACATTCAG
Seq C2 exon
AAAGGCACTTCAAGAGAAAAGAAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014720:ENSGALT00000023738:7
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=92.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCCTGTCTCTGAGGCTGG
R:
TGCTTTCTTTTCTCTTGAAGTGCC
Band lengths:
342-844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]