GgaINT1010306 @ galGal4
Intron Retention
Gene
ENSGALG00000003742 | CPAMD8
Description
C3 and PZP-like, alpha-2-macroglobulin domain containing 8 [Source:HGNC Symbol;Acc:HGNC:23228]
Coordinates
chr28:3988766-3990155:+
Coord C1 exon
chr28:3988766-3988927
Coord A exon
chr28:3988928-3990012
Coord C2 exon
chr28:3990013-3990155
Length
1085 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGA
5' ss Score
1.74
3' ss Seq
TCTTCATTTTTATTACCTAGGAA
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTTTTCAAAGAGCTCGCAGAGTACGACGTGTCCGATGCCTTTGGAGCTCCGAAGGAGGAAGGGCACTTCTGGTGGCCAGGCATGTCCTCACGTCGACGCCGCAGATCTTCTGTCTTTCCCTGGCACTGGGATGTCACCAAGGATGCTCGCTTCGCCTTCACA
Seq A exon
GTAGGAAGCATCAGCCTCAATTCTCTCTGCAGTGTCTTGTTGCTGGATGTGTTATGCTCTTTACGTGGGCTTCCCATCCTGACCACTCTTAGAGATAGGCTGGGGTAGAGAAACGTTACGTGTTTAATTGTTTAGGCTCTTTCCATTTTTAATCCATGCAACTGCTAATAATAATGATCCTTGCTTCCTCTGGATCCCGTGTCTTTCCATTCCTTTCATCCTTTCTGCATATTTATCAAAACTGTTTTATTTTATTGTCTTGGAATCCACAATCCCCCACATATCCTTCATCTCATAATCGTGAGCTCAGCTCCTTGTTTAATACCCTCTGCTGCAGGAGTCAGTGCTCCTTCTCCTCTCCCCAATCTGTTGGGGTTTTTGTTCTGATGTGTTTTTTTTTCTCTGAGAAGCAAAAACTGTTGGGAAAAGAGCCGTAAGTTTGTAGCTGGTGTGTGTGCACATTGGTGTGTACCTGATTAATAGTAGCTGAGTGTGTATGTGCAAGAGAACAAAGCCCGTGCTCCCCTCGGAGTCTGGGAGCTGCTGTCTCTTATGAATAAGTGCATTTAGGGGACAGAACTGGCAGACAGAGTGAATTCTGTGCTCTTCCTGTGAAGCTGTGCGGGCAGTTTCCATTTTGCTTGGCATTTCTGGTGGAGCAGAGCTGGGGATGTCTGACGCGAGATGCCTGCTGACTGCAGCAGAACACACTGGAAACTCTGAGGAAGGGTAAAAAGCCAGAATGTAATCTTCCAGGGGAAAAATATGTGGAATAATTTTTCACCTGTAGTTACCTGACAGTGAGACGTACCCAGCAGCGTTAGGTATTGGTGAAAGGCATTTCTCAAGCCAACAAAGCCTTTCTGATAAAAGCCTCTGCCTGTGAAGTGCCTGAGTATTTCCACACTAATGGTCACTTTAACTTTCTATGAAGTCTTTAAAAAATCCTCAAACTTCGGTTGAATTTTCCCCATAAACGTCAGAATAAGGTTGAGGGATTCTACTCAGAGCAGTTCTCATTGTTACACGTTTGATTCTATTTTTTTCCTCTTTTTTTCTTTATCCTCTTCATTTTTATTACCTAG
Seq C2 exon
GAAACCGGCTTGGTGGTGATGACGGATACAGTCAGCTTAAACCACAGGCAGAATGGAGGCATGTACACGGATGAGGCTGTCCCAGCTTTTCAGCCTCACACCGGGACATTGGTGGCCACAATGCGTTCTAAAATGGCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003742:ENSGALT00000005938:12
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=0.104
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGTACGACGTGTCCGATG
R:
CTCTGTGCCATTTTAGAACGCA
Band lengths:
289-1374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]