MmuINT0029980 @ mm9
Intron Retention
Gene
ENSMUSG00000046318 | Ccbe1
Description
collagen and calcium binding EGF domains 1 [Source:MGI Symbol;Acc:MGI:2445053]
Coordinates
chr18:66226383-66230975:-
Coord C1 exon
chr18:66230855-66230975
Coord A exon
chr18:66226523-66230854
Coord C2 exon
chr18:66226383-66226522
Length
4332 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TAAGATGTTCTTAATTACAGGCT
3' ss Score
5.75
Exon sequences
Seq C1 exon
ATGGCGCTGCTCCCCAACAATGCCGCTGAACTGGGCAAGTATGTCAATGGTGACAAGGTACTGGCCTCAAACGCCTACCTTCCAGGACCTCCTGGCCTGCCTGGGGGACAGGGCCCACCAG
Seq A exon
GTGAGTATGAAGAAGAGCCTGAGAAGCTGGTGGCATTTCTGCCCTCTCCACCAGCTAAACCAGAGGCTAACCAAGTGAGAGTTCACACTCAGTGAGGCTGGACAGTGCTCTCCAGCTTCTGTGAAACTGGATATGCAGGGCAACATGCCTGTACAAGGAAACACCATGGGGAGTTGGATTCTGTAGCTTAGGAAGAAAGGGTAAATTTTCTAGTGTCAGATAAAATTCCTAACGATCATTTTTATAGCTGAGTATGGTACTACATACCTGGAATCCTGGTACTCAGGGAGACAGCGGAAGAAGAACCATGAGTTAGAGGCTTGCCTGGACTACATAATGAAATCCTATCTCAAAAACCAATGAAAAGCACCATGAAGACTGTTAGTTAAGCTCACCCTAGAAAAACTTTAATGTAGAGTAATAGACTCATAGAGTCATTCAGTTCTTGTGAGTCGCAGCCAGCCCTAGCACCACTTTCTTTGGCTCTTTCTCTACCTTCTCTTACTACTTAATGCATTTTCAACTCTGCTCTTACTCCTATTATATCGTAGGTGGGATTTGTTGAGGTATAGATCATATAATGAGGTAGGCCATTCCACTGTTGAGTTTTGAGTTTTGGCAACTATAGACTCCCCTGGAACTTATTCTCCACATCAACCTCATAATACAAGAAGTTTCCACCATGCAGGAAGTTCCCGTGAGACATATGCCACCAGTGTTCTCCCCACACCAGCTGTAGGTATCCACCAAAGGCTTTCCTTTGCCAAGGCTTTTCCGTTCTAGGGCTGTATACCAGAGGACTCTCTTGGCCTGTGCTCTGTACAGCTGTCTTTGTTTTCAATCAGGGTACAGTTTTAGGGATTCATCATTACTTAATTAGAAGATATAAAATGTCCTGTCCTTTCTCAGGAAAGATACAGTGAGAACTTACTTCTTCAAGTTCTGAGGTGTTTTATGCTTTATTGTGTACCTCTCCATACATACATCAGTAGAGTCACACCAATAGACGGAATGACGTCAGAGTTAGTGTGTTACTCTAAACCATGGCTGTCTTGTCCCTGGTTATCAATTCAGCATAGTGCTGGTTCCAACCTCTGATGTTTTATCTGGGAAGAGGTGACATATAAATGACTACACACAGGAAAAGTAACCCAGAAATACACCTATAATCTCAGCACTAAGGAGGCAGAGGCCGAAAATTGTTGTGAGTGTGAGGACATCCTCTCTCAAAAAAAAAAAAAAAAATCAAGAAAGGTATATACCTCCCTCCAGGTCTGCACACAGGTACTTCTTATCAAGGCTGTAGGGAGAGAGCATGTAGCTTGCAGTCAAAGGTGGGTTTGGGGGATTGATCAGGTCAAGGAAGATCAGTAACATATCAGAGCAGGAGAACATGGCTAAGTTTTTTATCAAATATCAGTAGAAGGCAAGGCTCAGAGTTCTTTCCAAAGGATTGAGTGCTTTACTTATGTCTTAATCCTCTAGTCTCCATCCTGAGGCTCAGTCTACATAGAACTAGCCCAGGGCTTTAGTTTATCTTCTTGTTCATCCCATGGTCTGAATAGTCTATGTATCAGACAGAATTTTCTCAGGCAGATGCCTCACACCAGCATCCTCTGGCTTTGTCTAAGGAGGTAGGAGCACTCTCCTTACAAACTGATTCCCATCACAGTGGTCCCAGCCCCTCTGTAAGTGGATGCTCTTGTTTGTATCTCCAGGATGTCTATATATCACTAGAACAAAGACAGCTACTGGAAGAGGAGATTCATTGGTTATTGGGTGGTTTTGTTTTTGTTTGTTTGTTTTTTGGTTTTTTGGAAATGACTCACTAGTTTGCCTTCCAGCTCTGTCATCTGGTTTCTAACATGGTTTGAGCTGTCCAGGGTACTTGAGAAAACAGTGTGGTTGAAGATGGGCTTTTGAAATGCATGAAGAATTTGTCACTTATTTCTAGACTTGGATTGCTTTTCTATGAGATGTATTAGAGTGGCTAGAGAGTTCATGAGGTCTTCTCACTTAGAAACAGAAATTCCACCCAGGGCCCATAGTGAATTGCATACTAAAGCAATAGTACAAGAGGGTGCCCTGGGCTGGACCCTTTGGCATTAGAGATAAAGAGTGACTCCAGCTCTCTGGCCTCCAATGGTATAACAGGGTCCTGCATACTAAGATCCTACATTTTAAAGGCAGTTGACACACAGTGATCCTGATGTCTACTGATTAGTTAGCTGCAGATGACATCTCACCTCTAGCTTGTCTTTCTGCTATCAGACATGCAATAGTTACAACAGTGATCTGTCCCCTTCCCAAATAAACTCTTTCAATATGTACCTGGAATAAGTATTGAGAGTTGGGACTTGAGACACATTTGAAAGAAACATCAACTGCCTTCAACTTTGCCTTAATTATTCTGTGAACTAGAAATGACTTCTCCTAATAAGAAAAACCTAAGGCCTTTGGTTCTTTGTTTTCTTTTCAAGATCCTAAAAATTATTCCATGCTGTTACTGTGAGTTCTGTTAGTAGGAGCTAGATACAACTCAAAGGAGATAATATGGCACAGTAAGTATAAGACTGAACTTGGAGCAAAAGAAGCCACTGCAGGGTTTTCTCCTTTCAAATTGGGCTCCTTACAGAGCATGGGGAGTAGTAAAGAACTGATACATGACATACTCTAGCATCTGGCTCCTGTCTGAATCACCTCAGAGTCTGACTCTGCTGACTGTTGTATCTCTTGGTAGCCACTCGTTAATTTTTCTCTTGCTTATTGATGTGTGTCATTTTTTTTATTAAATGCTGCATATCATTTGTAGATAAACACTAGAGCCTAGGGAATTGATAATCACTCTTCACCACAGGTCCCCTCTTCTTCTGTCAGATCTATAACAGGAAGTTGGGTCATCTTAATGTGTAGTTAGTTTGGGGCTTTGTTGTCACTAAATTTACCTTCAGTGCTCAGCAGTCTTCAACTGTTCAAATCCCTCCAATGGTAGGATGATGTTCCTTTGTGCTGAGTCACTATCAGTGGGTTTTCTCTTTATTCCACTCTCGCCTTTCTGCAGTTCCTACAGTTCTATATACTCTTGTCCTTTCCTCAATAACAAATTGCTTTTCCTTTATATTTCATACTAGAGTGGTGGATGTAGAGACAGTTTCACTTTTCTTGTACCTTGAATACGTAAGGGCTCTTCTTTACACTCATCCATAGCAAATTATGGACAGAACACCTTCCTACTCTTCCCTCGCCTGAAGTAGGTATATATAGTGCCTACAGGAGAGAGCTTAGGCTCCCCATCTTGGGGGATTGAGGAGTTTATGGTAATGGTTAAAAGTAGGAAAGTTCTATCGTTAAGAGACACGCAATAGAGCTGCAAAGAATGGGCAAAGCGTGAACAAGATTGGTAGGAAGCAGGTGGCATCAGCGATGTGGCAAGAGGCAAATATACCAAAGCTGGAAGCCTAGCAGTCATTTAGTGCCTACCGTGTATGAAGTACTGTGCCATGTAGCATGTGCAGGTATCTGAATTTTTATCTAATACAACCATTGCATATTGGAATTTTATTCAGATTAGGAGATAAAAGACTAAGGTCCAAATTGCTCAAGCAAATTGTTAGGGATTCAAATGTAGGTCTCCCTGGTGGTCAAACTTCTACTTCTGGTGTGTGTGAGTACCTGCGCACACATGCATTGCTCTCTGTGTGTGCACGCATTCTCAGTGTGTGTACATGAAGAACAAAGGTCAACGTCTTGATGTCTTTCTGTATCACTGTCTCCATTTCACAGTTCAGATAGACTGGCTGAGCAGCAAGCCATTAGGACCTTCCTAGATTGACCCACTCACCCTCTGGACTCAGTTTATAGACACGGACTACCACAGCAAACTTTAACATGGGGATAATCCATCTGAACATGGGCCTTCATTCCTATGCAGAAAGTGCTTTATCCACTGAGCCATCTCCCCAACCCCTAAACCTTGTGCTCTTAAGCACTCTCTAGATAACATTACATACTCCTCTGATCCAGGAGTAGAGAGGCAAAGAGCAGGACACGCTTAAGGGGGTGAAGCATGTACATCTCCGACTGAGTAGACTGGTGGTGGAACTAGGGATCTACTGTAGGAAGATTCTCGAGTTTCTCCCGTGAGCAAATCGGTGACTGAGGCTCCAAAAAAGAGAGAAAGGTGACATCACTTTTAATTGTGCTGAGTTTAAATTCCCACGGGCACATTAATATAAATACCACAAGGCGAAGAGCAGAGAGAAAAGTCTCCAGTGATTCCTGGACTCTGTAGTATGGATGGGGTGAATCCTAATAAGATGTTCTTAATTACAG
Seq C2 exon
GCTCACCAGGACCCAAGGGGAGCCCTGGATTCCCCGGTATGCCAGGCCCTCCTGGACAGCCAGGCCCACGGGGCTCAATGGGACCTATGGGACCTTCCCCTGACCTGTCTCATATTAAGCAAGGCCGGAGGGGCCCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046318-Ccbe1:NM_178793:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.756 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(30.0=36.6)
A:
NA
C2:
PF0139113=Collagen=PD(68.0=72.3),PF0139113=Collagen=PU(20.5=17.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: