DreINT0068102 @ danRer10
Intron Retention
Gene
ENSDARG00000008969 | fgb
Description
fibrinogen beta chain [Source:ZFIN;Acc:ZDB-GENE-030131-9261]
Coordinates
chr1:9373660-9375385:+
Coord C1 exon
chr1:9373660-9373945
Coord A exon
chr1:9373946-9374849
Coord C2 exon
chr1:9374850-9375385
Length
904 bp
Sequences
Splice sites
5' ss Seq
ATGGTGCGT
5' ss Score
8.27
3' ss Seq
TTTGTGTTAATCACATTCAGGAT
3' ss Score
7.1
Exon sequences
Seq C1 exon
GCGAGTACTGGCTGGGCAATGACCGTATTAGTCAACTTTCAAAGATGGGTGCCACTGAGCTTCTGGTGGAGATGGAGGACTGGTCCGGCTCAAAAGTCTATGCTCAGTATGAGCAGTTCAGCATGCAGGGCGAAGCCTCCAACTACATCCTAGGAGTCGGACGGTACTCAGGAACGGCTGGAAATACATTCCTGGAAGGCGCAACAGAGCTGTTTGGAGAGAATCGTACCATGACCATCCACAACGGCATGATGTTCAGCACATACGACAGGGATAATGACAAATG
Seq A exon
GTGCGTTTCGTCCAAATCATTTGCATGCATGGAAAAGCTACTGAAAAGATTACATATGCAGTTTGGTCACATTTTACAATAAGGTTTTATTAGTTCATGTATTTACTAACATGAACTAATAAAGAATGATGCGTGTAGAGCATCTATTCATGATAGTTCAACATTTACTAATGCGTTATTAACATCCAAATTCATGCTTGTTAACATTAGCTATTTGCTAATGATGATGATGATAAGGATTTTCATTAACTAACATGAACAGATACTTTATTAAATATATTGTTCATTGTTTGTTCATGTTAGTAAATGGATTAACTAACATTAAATAATACGACCTTATTGTAAAGTGTCCACTTACTTAAAATGAGCTGAAACAACACAAGTCTTGAGTTTTTGGGGGGGACAGCTTAATTGTTTTATGTTTAACTCACTTAAAATTCTAAAAACTAATAAGCTAACCTAATTCCTTCATGTTGTCTAAACAAAAATCGATTGTGTGGAACTCAGCATTGTTTACAGTGGACTATCTAAAATGTTTTCTCTAATGACAAGTGGTATGTGTGCTTCTAATAATTAGCATTAATAAAAAGCTGCACAGTATCTAACCAACACAATCTCACGGCGATTCGTAACTTTTTTCATTTAGTGGCTAATTCGTATGAATTCATACGATCTAATTCGTACAATTTAGTACGATTTGCTTATCCTTCAATGACGGTTGGGGTTAGGGGTGGGGTCAGGTGCCACGCCTCCTTTTTAAAATCGTACCATTTTGTACGACTGAACTCGTACGAATTCATACGAATTAGCCACTAAACTGGCAAAACGCAAAATACGTTTTCTCGTGAGATCAGGCTGTATCTAACATGTTATCTCTTTCTTCATTTGTGTTAATCACATTCAG
Seq C2 exon
GATTCCTGGAGATCCTTCTAAACAGTGCTCTAAAGAAGATGGCGGTGGATGGTGGTACAACAGATGCCACTCTTGTAATCCTAACGGGCGATACTATTGGGGAGGAGCTTATACTAAATACATGGCCAAGCACGGGACAGATGACGGCATCGTGTGGATGAACTGGAAGGGCTCGTGGTATTCGCTCAAAACGATCAGCATGAAGATTAGGCCGTACTTCAAACAGAAATAAAACTTCATGTGAAATGAAATGCGTGTCGTTTCCTGCAGCATCTCATTTCATATAGGCTATTTTTTTTAAATAAAGCGGAGGATAGTAAAGCCTGCATAAAAGAGTGTGAATACATTGGAAAAGTGCATTGGATACATTGTGTTATTGGACATGTTAAAGTACTGTATGTAAAGGCAAAATGATGGAAATGAGATGGAAACAGTTCTCCTGGTTCTCATTAAAGCTGACCAACAAACAACAAAACTTTGTCTATTGTATTTATGAACGTTTTGTAATGTTTTAGAAAATAAACATGCTTAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000008969:ENSDART00000011701:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(38.0=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(28.8=92.3)
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:
GAGTACTGGCTGGGCAATGAC
R:
CTGTTGTACCACCATCCACCG
Band lengths:
347-1251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]