MmuINT0064515 @ mm10
Intron Retention
Gene
ENSMUSG00000026841 | Fibcd1
Description
fibrinogen C domain containing 1 [Source:MGI Symbol;Acc:MGI:2138953]
Coordinates
chr2:31813290-31817303:-
Coord C1 exon
chr2:31817124-31817303
Coord A exon
chr2:31816698-31817123
Coord C2 exon
chr2:31813290-31816697
Length
426 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTGCACATGCCACATGCAGGTG
3' ss Score
6.17
Exon sequences
Seq C1 exon
GGCTCAAGCGGATTCACGCCCTGACCACACAAGCAGCATACGAGCTTCACGTGGACCTAGAAGACTTTGACAACGGCACCGCCTATGCCCACTACGGGAGTTTTGGTGTGGGCTTGTTCTCTGTGGACCCCGAGGAGGATGGGTACCCACTCACGGTGGCTGACTACTCCGGCACCGCAG
Seq A exon
GTGAGGATCCAGTGCAGCAGGGAGAGCTGGCCTGGCCAGTCAAAGCCTTCTGCTCTCTGCAGTCAGGATCTAGGTCACAAGTCTCACCGGGTCCTCACTCCTGCAATGCTATGGGGCCTGGGAGGTTTACCCATTTCACAGAGTGAAGAGCTGGGCCCAGAACTGGAGCCTGGAGGTCTCCGGGGTTGGCTTCTGTGGGGCCAGTAAGTTGTAGATGAGTTCTCTGGGCTCATCTCAGATAAAGGAATGGGTGAGTCAGAAAGCTGGGAGGAGGTTAGAGACAGCCTGGGCACAGGTTTGAGGGGTGGTGTGTGCATTCGCACACCCAAACTCATGTGGCTGGTGGACAGTGTTTGGGGGCCTATGCATGCTTCTGCCCGGGTGTCTGGCCAGGTGCCCACCGCTGTGTGCACATGCCACATGCAG
Seq C2 exon
GTGACTCCCTCCTGAAGCACAGTGGCATGAGGTTTACCACCAAGGACCGGGACAGCGACCACTCGGAGAACAACTGTGCCGCCTTCTACCGAGGAGCCTGGTGGTACCGCAACTGTCACACATCCAACCTCAATGGCCAGTACCTGCGTGGTGCACACGCCTCCTACGCAGACGGCGTCGAGTGGTCCTCTTGGACGGGATGGCAGTATTCACTCAAGTTCTCGGAGATGAAGATCCGGCCGGTCCGTGAGGACCGCTAGACTGGCCCACTGCCCAGTGCCAGCGTCCTCTGGTTATGTCTAGTCCCTACACATCTCATCCCATGCCCACTGCTGCAAGAACATGCTCTGCCCACCTGTGCATGGCTGGTCTGCTCTTTAGTAGGGATGGCCCAGGGTCAGCCCTGAAACTCAGCTTCCTGAGCCAGTGACACTCCTTCCCCAACCAGGTCCCTGTCTATCAAGTGACATGCTCTTTGGTTCCTACCAGCGGAGCTGGCACCTGGCAACCCCAAATCCCACCTGCCCAGGCTTTGGTCCCTGTGCTTTGTCTGCTGCATCCTGGTAAGGCAGCATCTCCCATTCTTCCTGGCTTGGCAAAAACATCCAGAATTGGGGGCAGGCAGCACCTTGGTCCCCTCCATCAGATCAAAGTGGAAGGCTCAGACCTTCTCACCTCTGACACCTGTCTGCCCTAACCCCAATCCCTCAGGGCCTGGAGACCCTACCTCTTATCAGAGGACCTTGTGCAGCTGCCACAGCTCTCTCTCATTTGTGGCCAACTGGGCCGTGGCACAGCTGTCTACAAAGCCCCAAGGCCAAGACCAGACCCCTAGGCCACCCTTCCCTGGGTCTCCACAGACCTGGGGGTTTTTATTCTTCTGGTTGCTTTCAGAGCTCATCTGCTCTTTCCCACCTCAAACAAGGTCCACCTGCCCTCCTGCAGAGCACCCATGGGTCCTGCCCCACATCATCTGCCTGTGGGGCAAGGGTGGGACTGGCCTAAGCCAGTGAGGACCTCCTGGGGTGAGGCTGTGCCAGGCTTTTGTGTTCTGCCGACCTCCATGGACTGACTCTAGGATCTTCTCAGAAGCCAGCCAGCCCTGGGACTCAGCATGGCCCAAGACTACCATCTCTGCAGAGAGACTGCCCCCTGCTGGCTATCACGGACACTGCCATCAGGGTCTAACAGGTGGGGTGGGGTGGAGGGGAGGGCAGGAGACAGAGCCCTCAAACAGGTTGGACATCTGGACATTTCCTTGTCCAGCCTTCTCAACACCTGCACGGGTGATCCCGCAGGAAGGCAGGCTGCAGCCCCGCCCTCAGCTACCTGCTTGGCAGCTGAGATGCTCTTCTGAAAGCCTGACAGGGGCTTTAAAAGAACTGGATGGTAAGATGGCAATGGTGACCTCCTCTGTCTGGAGGCAGAGGCCCATGCCTTTCCTTTCTGCCAGACTTGTACCAAAGCCTGAAGCCACCGATGAACTGTGTGACCTGCTCAGTCCCTCACATTGGGCCTCGGGTCTTCAGCAAGGATCTGTAGCACCTGTGAGAGTCAAAGCCGTCCTAGGTGCTGGACAGGACTGGTTATGGTCCCGCGCTGGTGGCACGAAACATGAGTAGAGTAGCCAAGGTTCTGATGGGACAAGGGATACATAGGAAAGTCCCCTCCCATTCCCTCTCTGTCCCTGACACCTGGCACCTAGCTTCATTGCAGAGGTGTGTGGGAGCTTAAACACATCCTGGCAGACACTACCCACCCCCGAGGCTGGTGCTAAAGTGGCTTCTGTTGCCAGCTGCCGCTGTAAGCGCTGCTCAGAAGTGCCAAGCGCTTTCTGATGTGGTATCAAACAAACTCCGTCGAGTGAAGCAACAGATTCACACATGCAAGTGTGGGACAGGAGGGCTGTGGGCCAGGGCTGGGCTGCAGAATGCAGGAGCTGAAGCTCAGCCCATCAGGGCAGCTGGTGAAGGGTGACATGCATCCCTGTCTGGTCACATTGGAAATGACAGCCCTTCAGCCCAGCCACTGCCCCAGGGACACCAAGCTCTCTCCCAAGCCAGGCTAGTACTCTAGGGGGTGTGGTTTTGTCAAACGCTGGCCGAGTGGGCAGGAGTTAGTAGGGAGAGACCAGGTCAACAGTCCTTCACCTTCCTGGTGTGCACCCTCCAAGGGCAGGCGGGAGCACTGTCCCTGGGAGCACTATTCCTGCACACTGGGCCACAGCCTCCAGCCCTGGCTTTCATTCACTGGTCTGATGTCTGTGTAGGTGGCTGCCACCTGTGATCAGTGACCACGGGAAGCAGGAATGCTGGGAAGTTTGGGGGGCAGGACAGGTCCACTAAGAAGACATAATGTCAGTGGGCTGTGGTCCCTGATACCCCAGACCTACTTTGGTTTGTCAATGGAATGACTAACCAGGGTGAGTCTATGAAGTCACCTGGCAGAGCCACACTGCTTATCTTCTTGGGAAGAGTCTCCACATCTCACACGAGGGTCTTGGCACTGTGGCTGTCTCTACTTTGCAAAGCATCGAAAATCTTTCCAAGCCTAGGTTGGCTTTGTGGATTCTACCAAAGGCCTCATAGCTGGGTACACCTGGGTCGTGCCAGTGGCCACCTAGACAGCATGCAGGGAGCAGACAGTGCCTTGGGTCCCCTGCAAACCTGGGCTGGTGAGTGACCAGTTAGAGCTGTGAGCCTCTCCTGTGGCATTAGTGGCTCGTGCGTGTGGGACACTAGTGTTTGTAGGTGGGAGTGTCATCTCCAGCTCCTGGCTCTTCCCTGCCCCTCATCTGTGTCACCCCAAGCCTCCAGGTGGAGAACGAGCCATCTGTGGCCATGGTCACTGCAGGACTTGGCCCACAACCAGCACTTCTAGAAGATAGCAGGGCCTTGGATAACCAGAAAGTCTATGAGCAACAGATGCCGTCCTCAAGATGACTTGACTCTGAGGTGGGAGATATGTATGAGCTAGGCCCACAGCTGCCCTGAGCCCTGTGATCTAAGGAGCAACATGCCAGCAGAAGTCTCATGGAACCCAGAAGTGTGATGAAGCAACATGGACCCAAAGTGCCCGGGGGCCTCTCAAAGCCTCATTCCTTCATCTGCCTTTGGCGCAGGTTGCCCGAGGTTCTGGTGGCCCAGCAACTGCAGGGATCCATAAATCCAGAGGCCAGGATTCAGGCTCAGTGGCTGTGAGTGGGGGTCCGACCTGAGGCTAGCTGTGCCAAGCAGAGCAGGTGTGCATGCTGTCAGATACAATGGGGCCCTGGGGCTGGAAGCAGCTCTGAGGGTCAGTGCAGCACCCCATGGGCAAACAGTGGGCCTAGTTGCTACTTGGGGCTGTGTGCACCCGGTGTCTTGTGTACCCTTGTCTTCAATAAAGTCTCGTGGTGACCCAGCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026841:ENSMUST00000028188:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.058
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(27.5=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(37.2=93.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATACGAGCTTCACGTGGACC
R:
ATACTGCCATCCCGTCCAAGA
Band lengths:
353-779
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types