GgaINT0112116 @ galGal4
Intron Retention
Gene
ENSGALG00000014720 | CD163L1
Description
CD163 molecule-like 1 [Source:HGNC Symbol;Acc:HGNC:30375]
Coordinates
chr1:77269275-77270620:-
Coord C1 exon
chr1:77270306-77270620
Coord A exon
chr1:77269587-77270305
Coord C2 exon
chr1:77269275-77269586
Length
719 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCATTTTCTCTTATATTCAGGGT
3' ss Score
9.47
Exon sequences
Seq C1 exon
GCTATGGTGGATACAGATTGTCAAATGGCAGTACCACATGTTCAGGTAGAGTTGAGCTTCTTCATGGAGGATCATGGGGAACACTCTGTGACTACTTGTGGAATTTTTCAGCTGCCAATGATCTCTGCCAGCATCTAGACTGTGGAGTTGCACTATCAATACCAGATGGACAGTCCTTTGGAAAAGGAAATGGGTCTTTCTGGAATGGTACATTCAGCTGTAAGAAGAATGGCTCATACTCAAGAGACTGTTCTGTGAGTGTCCTAGATCAGAGTGAATGCCCTGCTGGAAATGATGCTCGTGTGATATGCTCAG
Seq A exon
GTGAGCAATGGAAAGGGCCAAAAGGAGAAATGAAAAATTGCTTCTTTGAGACAGATATGGACCCCAAAACCAGAGGATATCTGTACAGCCAAGCTCTGTATTTAGCCTGCTGCAGGTATTTCCAGGAGCTGTGGCTGCATTTCACTCTTACCACAAGGCTGTTCACTCTCTATGAAGTGCTCTTTGTGCCAGGCAAGAGCACGGGAAGGGCTGCTCCTCAGGGGACAATGAGTTGGGTCCAGATGGTGAGAAAATATGAGTGCATCCATCAGGGTATAGTCCGAAGCATCTGAACACAGAGGGCTCAACTAGATAGAACAGTCAGGAACAGCAGAGGACAGGAGTTACACCAACCACATAGTTAAGGCAAGGACTGAAGGCCTGGTTCAGGCTTAATTGAGTCCTTGGACCCATGGCCTGTGTTGAGAGACCCAAATACATCTGGTCAGAGTAGTTAAGATTCACTCAAAGCCTTGAAATCTAGTGCCTCAAGTTTAAAAATTGCAGGAGACCAGATTCTGATTTCTAATCATTCTCCTCAGTAAAACAGGGGGACTGAAATCTAGCTATATTATGGAAATTCTTGTGGCCAATGGAGTCATTTTTGCTCCTCTTCATTGCCAAGGAAAATTCATTTCCATTTCCAAGCCACTTTTTAGATCACGCTCATGAGCAGTTACCAGTATGACATCTTGGTATTCATTTTCTCTTATATTCAG
Seq C2 exon
GGTGCCCAGGGGGCAGACTAGTGAATGGCACCACATGCTCTGGCAGAGTGGAAATCCGCCATGGAGATACATGGGGAAGACTCTGCAGCTCCCACTGGAATTTGCAGGCTGCTAGCGTTCTCTGCTATCAGCTGAACTGTGGCTATGCAAAGTCAATCCAGACAGGAGACAGTTTTGTGGATGGGAATGGGCCTGTATGGAGAGATGCTTTTCACTGTAAAGGGACAGAGTCCTGCCTGTGGGATTGTGCTCAAGTGACTTTGGGCAATCCAACCTGTTCAGCCAAAGAAGTAGCCACTGTTGTTTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014720:ENSGALT00000023738:3
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:
PF0053013=SRCR=WD(100=92.4)
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:
TGGAGGATCATGGGGAACACT
R:
AAATTCCAGTGGGAGCTGCAG
Band lengths:
354-1073
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]