DreINT0007467 @ danRer10
Intron Retention
Gene
ENSDARG00000056530 | CPAMD8
Description
C3 and PZP-like, alpha-2-macroglobulin domain containing 8 [Source:HGNC Symbol;Acc:HGNC:23228]
Coordinates
chr22:21239733-21240908:+
Coord C1 exon
chr22:21239733-21239891
Coord A exon
chr22:21239892-21240765
Coord C2 exon
chr22:21240766-21240908
Length
874 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CTTGTGTACCCGTGTTGTAGGAG
3' ss Score
7.5
Exon sequences
Seq C1 exon
GTGTTCAAGGATCTGGCCGAGTTTGATGTATCTGATGCCTTTGGGGTACCCAAAGATGAGGGACATTTTTGGTGGCCCGGATTGTCTTCACGAAGGCGACGTTCCTCCGTGTTTCCATGGCACTGGGACATCACTAAAGATGCCCGTTTTGCTTTTACG
Seq A exon
GTGAGGACATGACTTTCTCCACTTCCCCGTATTGTTTTAAGCTCAGGCAGCATAGTAGCTAAGTGGTTAGCACTCACAGTAAAGCTGCGGTCACAGTGCACTTTTCACCCCATAGACTTTCCTTCATAGGAACGAGAAACACCAGAAATGCAAGCTTGTGCAACAAGTTTCACAGTTTGCTAGTTGCGAAGTTCAAACTTGGTGAATTCTGACCTGCGAAATCGCTTCATGTGACTGCATGAGACCAAGAGAAGATCAGATGACCTCTCTGTACAGAAATGTAAAATATGGACCAACTGCATGCTTTTTCTAATCATCTTGTTTAATACCGCCCCTTTTCACAGCACCATACAACAGAATTTTGCATGCTAAAACTCTTGTGTGACCACGGTACTAAAAGTTTGCTGATTTGAGTCCCAGCTGGACCAGGACGTCATTCTGTGTGGAGTTTGCATGTTCTCCCTGTTTTTGAGTTGGTTTCCTCTGGGTGCTCCAATTGCCTTCTACATTCCAAAGACAGGCAGTATAGGTGAATTGAATAAACTGAATTGGCCATAGTGAATGAGTGTGTATGGATGATTTCCAGTAAAGGGTTGCAGCTGGAAGGGCATCCTCTGTGGCAACTCTTGATGGATAAAAGGACTGAATAAATGAAATTGACCACAGTGTGTGAATAGAAGAGTGTGGGGGTGTTTCTCAACACTGAGAGTTTTACTCAATGCTGGGTTGCGGTTGGAAAGGCATCTGTTGTTAAAACATATGATTGAGTAGTAGGTGGTGGTTTATTCCTCTTTGAAGACCACCAAATGAAGGGGGAAGCCGAAGTTAAGTAAATGAGTTCAAATTATAATATGCTTGTGTACCCGTGTTGTAG
Seq C2 exon
GAGACAGGGCTGGTGGTGATGACAGACATGGTGAGTCTCAATCACAGACAGAGTGGAGGGATGTACACAGACGAGGCCGTACCTGCGTTTCAACCACACACCTCTACCCTGGTGGCAGCTATGCACTCCCGATCTGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056530:ENSDART00000134893:14
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=0.041
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCAAGGATCTGGCCGAG
R:
CAGATCGGGAGTGCATAGCTG
Band lengths:
295-1169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]