GgaINT1010322 @ galGal4
Intron Retention
Gene
ENSGALG00000003742 | CPAMD8
Description
C3 and PZP-like, alpha-2-macroglobulin domain containing 8 [Source:HGNC Symbol;Acc:HGNC:23228]
Coordinates
chr28:4003047-4003705:+
Coord C1 exon
chr28:4003047-4003183
Coord A exon
chr28:4003184-4003549
Coord C2 exon
chr28:4003550-4003705
Length
366 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TCTCCCTCTCTGATCCCTAGGAC
3' ss Score
11.01
Exon sequences
Seq C1 exon
TAGTTTCTGCAGAAGTGGAAATGACATCTTACGCCCTTCTGACATACACACTCCTGGGAGATGTGGCTTCTGCACTCCCCGTGGTAAAATGGCTCTCACAGCAGAGGAATGCACTCGGGGGATTCTCTTCTACTCAG
Seq A exon
GTGGGCTGCCTTAAACAAAGGTAACTTTGGTGCATACAGAATTAATTGCAGAAATTGATTGATTTGGTTATGGTTAATGTAGATTTTCTGTCTAGAGTCTAGAAGCTGTGTCCTGTTAAGAAGAAAAGGTTTCTGTTGCTCTTGACTACTTCATTCTGGAATCAGTAGTTTGAAAGGAACCCAGGCTTTGTCCTTACAGATGCCTTTGACAGCAAAAGTGAACAAAAGCTGAGATTTCTTTTGCAGTGTGAATCAATAAGGAAGACTGCTACCAAAAGCTGATGTCAGCACAGCACAGTGCTTGTTTGTAAGTTCAGTATGTGCTCTGTTCTTCCCTATTCTCACCTCTCCCTCTCTGATCCCTAG
Seq C2 exon
GACACGTGTGTAGCCCTGCAGGCTCTGGCTGAGTATGCAATCCTTTCTTATGTTGGAGGAGTCAACCTTACCATTTCCTTGGCTTCGACTAATTTAGACTACCAGGAGACATTTGAGCTTAATAAAATGAATAAGAAAGTCCTCCAGACTGCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003742:ENSGALT00000005938:27
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:
PF076789=A2M_comp=FE(18.0=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.2=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGTTTCTGCAGAAGTGGAAATGACA
R:
GTCTGGAGGACTTTCTTATTCATTT
Band lengths:
286-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]