GgaINT0112117 @ galGal4
Intron Retention
Gene
ENSGALG00000014720 | CD163L1
Description
CD163 molecule-like 1 [Source:HGNC Symbol;Acc:HGNC:30375]
Coordinates
chr1:77268436-77269586:-
Coord C1 exon
chr1:77269275-77269586
Coord A exon
chr1:77268835-77269274
Coord C2 exon
chr1:77268436-77268834
Length
440 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCCAAACCTTTTGAACCCAGGTC
3' ss Score
4.73
Exon sequences
Seq C1 exon
GGTGCCCAGGGGGCAGACTAGTGAATGGCACCACATGCTCTGGCAGAGTGGAAATCCGCCATGGAGATACATGGGGAAGACTCTGCAGCTCCCACTGGAATTTGCAGGCTGCTAGCGTTCTCTGCTATCAGCTGAACTGTGGCTATGCAAAGTCAATCCAGACAGGAGACAGTTTTGTGGATGGGAATGGGCCTGTATGGAGAGATGCTTTTCACTGTAAAGGGACAGAGTCCTGCCTGTGGGATTGTGCTCAAGTGACTTTGGGCAATCCAACCTGTTCAGCCAAAGAAGTAGCCACTGTTGTTTGCTCAG
Seq A exon
GTAAGTCAGGAATGGGTTTTTACACGTTTTGAAACTTCACACCAAAGCAATCTTGGTGATCTCACTTTGCCAAGTCGTCAGCTTATATTTAATGTCCTCCTTCCTTCACTACCCACCCATCACCCTTCTGTCCCCAGTTTCAGCATAAAAACTTCATTTAGTAAGATTTCACTCTAGAGGAATTCACATTATTTAGATGTGCCTTATTCCTCACAGGATGTAGCCTTTTAGCTGGATACATCTTTCTTTCTTACTATTGCAAAACCTTCTGGGCATAGAAGCAAGCAAAGCCTTACCACAGGCTGTCTCCTTTATCATTGGTGTGAAATACTCTCTATCATCATATAAATTCGACTTCCATCTCTCTCCTGCATGTTATTTCTACTGTGATAACGTCAGTAAACTTTATTCAGTGCATTTTCCAAACCTTTTGAACCCAG
Seq C2 exon
GTCTTACTGAATCACTCAGACTCTCAGATGGTCAGAGCCGCTGCGATGGGCGTGTTGAAATCTCCCTTGATGGCATGTGGAGCAGAGTCCTAGATGACGACTGGAACATCAAAGATGCTCATGTGGTATGCAGACAGCTCCAGTGTGGAATAGCCAAGAGAGCCTATTACCTTCCAAGGTCTGAACGAGGCATCGGTCCTGTGGGCTTAAGAAGTGTCCACTGTGATGGAAATGAGACTCAGCTACTGCTCTGCAAGACCTCCCATTCTCAGGTGCTGTCAGCAGGAGTTGCTGAAGATGTTGGTGTGATTTGCTCTGGTGAGTTACTGTGTGAAAAGAACAGAATGCTTTCTAGGGTTGTCTCTAGCCAGCCGTGTGCTGTGTTCTCACCAGATCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014720:ENSGALT00000023738:4
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=92.4)
A:
NA
C2:
PF0053013=SRCR=WD(100=73.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTGGCAGAGTGGAAATCC
R:
GGGAGATTTCAACACGCCCAT
Band lengths:
342-782
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]