MmuINT0030402 @ mm9
Intron Retention
Gene
ENSMUSG00000047696 | Ccdc144b
Description
coiled-coil domain containing 144B [Source:MGI Symbol;Acc:MGI:2681852]
Coordinates
chr3:35916596-35917970:-
Coord C1 exon
chr3:35917756-35917970
Coord A exon
chr3:35916819-35917755
Coord C2 exon
chr3:35916596-35916818
Length
937 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TGTCTTTGCACTCTTCGTAGAAC
3' ss Score
8.14
Exon sequences
Seq C1 exon
ACACAAGCAGCGTATGAAGACAAGCTAGAGAAGTTAAGACAGAAACAGAACGCTTCAGTGCGAACTCAGATGGAGCTCAGAATAAAGGACCTGGAGTCTGAATTCTCTAAGATGAAAAGTCAAGTTGATTGTAATCAAATAGAAATGGAAAACTATAAGCAGCTCTACCTAGCGGAAGTGAAAATTAGAAAATCATTGTCAAATAAATTAAGCAA
Seq A exon
GTAAGTCGGAACTGAGAGAAGATAAACTAGGCTCAGTGTTCTGTCCCCAGAACACAATTTTTACTAAAATGGGTTATGGAAATTGGTGTGAAAATCAACTATAGGATGTAAATTTGTAGGCTGGTGCTGATGCCCAGTCAGAGAGCTGGCCCACCCTCCACAAACTTACAAAGGAAAGGAGAATCGAATTTTTAAAAATAAAATCAACAACGTAACTTACCTTAAGGGGCTGGAGAGGTGGCCCCAGTTTCTAAGAGTGCATGCTATTGAGCATCAAAGTTCAGTTCCCAGCGTCCACATCAGGCAGCTCAACCCCTGCAAGTCCAGCTCCAGGGGCTCTAGTACTTCAAGCTCTGCCAGTGCCTGCTACTGTGTGAGCACACGCATATTCCTCTTCTTAAAAATTTATTTTTAATCACCTCATCCATGTCAACTTCTATCTCCTCTTCTTTCTACAAAGCTTTTTAGCCCTCTTTATGCTAGCCTATGGCTAACCTGGCATATTTCTAAAGTTCTGTATTTGATATAGTCTCATTACCAAATTTCTGCTTATCATCCTCTCAAAAAGAAAGATTAAAAGGATTACTGTTGCAGTGGGCACAATCTAGTCACTGGAAAATTAACTTTCCTTGTTTAGGTTTTTTTGTTGTTGTTACTACCACTTGAAGGTCCCCAGACACAGACTCGCCTTTACAGTTTTCTATTGTGCCTTAAAACAGAGTTTTGCCCCAGGAAAACATGAGCATAAGACTTAAGGAAAGTATTCCTTGGAAAATGGTAAGACAGTTTCTGATTCAGTGTGCTTGTGAGTAGAAGACAGAAAGGGTGGAGCCCTTCTGCTCAATGGGGAATGTCATTAACCGGTTTAAAATGTAGGTTATTTAGGACCCACTCAGGAACATGAGGTATGAAGAATCTGTCTTTGCACTCTTCGTAG
Seq C2 exon
AACAGATGAAAGACTGGCAGAGGTCAAAACCAAACTTCTCCTGGAGAGAAAACAGTACCGAGCTTCCCAATACAGCATGGTGGACACAAGGCCTGCCCTGGAGCCCACTTGTCCTAGAGACAGTAATAAATTTTTCATTCCAAGAAGTTTCTCAGGCGAAATCATGCTTCCTAAGTCAGACCTCTGGCACTCAATTGAGACCATGGAAAATTGCAAGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047696-Ccdc144b:NM_178418:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF120013=DUF3496=PU(48.1=72.2)
A:
NA
C2:
PF120013=DUF3496=PD(50.9=73.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCAGTGCGAACTCAGATG
R:
TGAGTGCCAGAGGTCTGACTT
Band lengths:
357-1294
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: