DreINT0068537 @ danRer10
Intron Retention
Gene
ENSDARG00000060393 | fibcd1
Description
fibrinogen C domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-070424-245]
Coordinates
chr5:33528695-33532405:-
Coord C1 exon
chr5:33532246-33532405
Coord A exon
chr5:33528832-33532245
Coord C2 exon
chr5:33528695-33528831
Length
3414 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
GTCTTTTTTGTTTTTTCAAGGCT
3' ss Score
9.07
Exon sequences
Seq C1 exon
CTGTTATCCGAGAGCCAGATTAACATGGTGAAGGTTGTCAACTCTGTGAGTGATGCTCTGAACGCCATGCAGAAAGAAACAGGAGGCTTGAAGGCCAGGGTGAAGGCTGACCTGCAGAGGGCGCCAGTCAGAGGAGTGCGCCTTAAAGGATGTGCTAATG
Seq A exon
GTAGGAAATCTGTACTGCCTATACATCTTACTTATTTAACAGTTTTAAGGTTTTATCTCAGTCCACTGGGCATTTTTCTACACTATACTACCAATAGAATGGTTTAAGGCTGTTAAGATGTTTTTTTATATTACTACATTATAAATGTTCTTCCCCAAAAACATTTATTAATTGGGTGATTAAAATACAGTGAAAAGTGTCAAATTGTTAACTGTTATTATATTATAGATTTTATTAATATATGCGTGTATGCAAGTAAGTACAGTATGTATGTATCAATGCAGTTATTTATTTATTTATTTATTTATTCATTTATTTATTTTTTATTTGTTTATTTATTTATATACAGTGCTCAGCATAGTTGAGTTCACCCCATTTTGAAAACAAATATTTTTATCCATTTCTCAGTGAATATAGGCAATGTAATTTGGTGAATGTAAACAAAAAAAAATAAATAGATATATTTATTAAAACAATATTTTAGTCATATTTAGAAATTGAAAGATTAATACAATTAAATTCAAGCAATATATTAGGAAACAATTACAACCAACAAAATTTCAACAAATTTTTTTTTTTTTTTTTTTTTTGCTTCTCTTGATTTTTCCTCTTATTTAAATTAGTATTTAATCTTTTTTGGGTATACTAGTTTTTGTGTGTATTATATATACTTATCATAGAAACAAAACTATACAATAAATATAAACAATTTTGTTACATACAGTGCTCAGCATATTTGAGTAGACCCCGTTTTGAAAATGAATATCCATTTCTCAGTGAATATGGGAAATATTGGTGCATTTGAACAAAGCAGATTTATTAAACAGATATATTTATTAAAATAGTATTTTGGTCACAGAACATCCTTAGAAACTGAAAGATAATACATTTAAATTCTTGCTAAAAATTGCAAGAAAAAAAATTAACTACAACAGTTCAACAGGGCGACGCAGTGGTGCATTAGGTAGTGCTGTCGCCTCACAGCAAGAAGGTCGCTTGGCTCGGCTTAGTTGGTGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCGTTCGCGTGGGTTTCCTCCGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACATGCGGTACAGGTGAATTGGGTAGGCTAAATTGTCCGTAGTGTATGAGTGTGTGTATGAATAAGTGTGTGGATGTTTCCCAGAGATGGGTTGCGGCTGGAAAGGGATCCGCTGTGTAAAAACGTGCTGGATAAATTGGTGGTTTATTCCGCTGTGGCGACCCCTGATTAATAAAGGGACTAAGGCGACAAGAAAATGATTGAATTAATGAATGAACATTTCAGCAAAATTGTATATATTTATTGTTTCTCTTGTTTTCACTATTTTTGACATTTTTATTTAATATTTTTTTAACATAAATTTTGGTGTACTCATTTTTTAACCATTATTGTAAGTTATTTTGTTATATAAGTTCCAGATTTGGCTTCAGTACTGACTAATCTAATGTATATGTGCAAATATAATATTGAAAAGCTTTCTATTAAAAATATGAATTTAAAAGATAGATTTGTGAGGGGTGTACTTATATATGCTGAATTGTAGCGTATTGTATGTTTAAAATTGGAACTTTCAGTAGTTATTACCAGAGAAACATGATTCCTCAGATTTTTTTAAAGAGAGTTGTATTGTGCAGCTTAAATTGTTGTGTTGTAATGTGCAGCTTAATAATGTTTTTTAAATATTCTGTTTTTTTATTATTTCATGAACAGGAAGTTCCAGACACATTTCCTGGAACTATTAAAGTGTCCAGTGAATGCATTTTTTATGTTTCCCATTCCTTCAAGCATGCCTGATTTCACCTCATTGGGTCAATATTCGGCTAACTGACATATTTTTCTTCTTAGAATTATTTTTTAAATATTTAATTTTGATTCAGTCTGTTTTGCAAATTCTTTCTTACACATTGAATGGTTTTTCAGTGACTTTTTCTGAGACTCCTTAAGTCCCCAAGAACCAAAAGCTATGATCGTTATTTTTTTATTGTGACGCAGTTCCTTAAGAAACTTTTAAATGAGCAAACCGTAGGCGTAGCTTGTTTTTTCTACTGCAGGCAAAATGGATGGGGTAAAGTAGGCATTTAATTCAGAAAGATCAGGAAAGGGGTTGTAGGAAAGTTAGAACAGTATAGAAAAGTTTGGTTCTTCAAACAAGTTTGCAAATTTTAGAGATTAAAATGTCTGATCTGAGATCGCTGCGTGTGTTGTGAAGGACAGATCCATCGATCCTCAAAGTCATTTTTAAGTTTTGAAGAATGAAATGATCCTGGATCGTGTCCAATTGTCAATAACCAAATCCAGCTAATTGAATAATCCACGTACAAAGAACGGACCACTGCTCACCATTTCCGTTTGTTGTCAAAACTGACAGTTGGAATAGCGTAGTTAAGTATGTTAGCCACGCCCATTGCCTCGGTATTGCTTAATCTGATAATCTTATAGGACAAACCATATTTTCTTCTTAAAGACATGCACAAATGAGTTGTTGACCACAAAACTGGCCATATGAGCTAACGAAATCATGTAGTTTGTTCTGATTCTTTGCAACTCGGGAAATTATCATTTTTACTTTTCTCCATTTGACCTTACAGCTCAGGAAAGCTGCTAGTGGAAGGGTTGAATTCAGAGCAGCATCACAGCATACTGCTATAACTAGCAGCTTTATAATGATTAGGCACATGACATATTTCGCTCAGGTGCTTGTCTTTATCAGCTCCGTTGTCCCATGAGGAAAGATTCATATTCAAATCAGGTAGCCTGACATCACCGGCTCAGAATCACAAGCACTTTGGTTTCTGATGAGAGGCGTTCTGATCCTCCTCCCACTGTTGACTCATTGGTTCTCAATCCGAAGAACATCAGACAATTTCACGGAAAACTGTGTTTAAAAAAAGCACATAACTGTTGTCTTCTTTTTGTGCCCCCGCTGATCTGAATTCTCATTAGATATGTCGCTGGAAGCTGAAGGAAAGTGTCTGTGCTTAAATTGTGTTCTCAGGAGGCCTAATGTGTCTGAAAGCATTTTACCACTTTACTTTTATAGCCCTGATGTGTCTGCAGGATCCACAGGTGTGGCTCGTAATGAACTCCTGAATGGAGCAGACACTTGTATGCAAGCGTGTGCCAGTGAACGGAAAAGTGTTTTCTATAATCAGGAAAAAGGATCGCTCTTTTGGGAACAGAGACCAGTAAACTGAGAAGCACCAGCTGCCTTGGAAAAACTGGCACAAAATCATGTTAGCTAACCTAGAGCTATATTCCTTTGGTCATTAAATCAGCCTTGGCCTAGTTTAGTTATTTGCACATCTGCATCCTTTTGGTGATCTAGTCTTTGTGTTTTTTGTTTTTAACTCTTTCCCTGTCTTTTTTGTTTTTTCAAG
Seq C2 exon
GCTCTCGTCCGCGAGACTGCAGTGATATATATGCTAGTGGTCAGAGGGAAGATGGCATCTACTCTGTTTTTCCCACTCATTACCCTGCCGGCTTTCAGGTCTACTGTGATATGAGCACAGATGGAGGTGGCTGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060393:ENSDART00000146321:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(20.0=93.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]