DreINT0039094 @ danRer10
Intron Retention
Gene
ENSDARG00000021004 | c5
Description
complement component 5 [Source:ZFIN;Acc:ZDB-GENE-120510-2]
Coordinates
chr5:62782009-62782901:-
Coord C1 exon
chr5:62782812-62782901
Coord A exon
chr5:62782222-62782811
Coord C2 exon
chr5:62782009-62782221
Length
590 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGA
5' ss Score
6.56
3' ss Seq
ATTTCCTCCTTCTTGTTCAGGTG
3' ss Score
11.61
Exon sequences
Seq C1 exon
GCACTCCCATGCGAAAACTTGAGTTTAAAAATGTTATTCCTCCAAAAATTGTGCCCAAGTCATCTGTGGATCGAATTATCACAGTCAATG
Seq A exon
GTATGAGGCTTGTGAAGCATGTCCTTCTTTTTAATAAGCATACTTCAGTAATGTTTCAAGTATATATTCAAATAAACAGTGAAAATGACATGTTTGACTTAAATAGTTGCCAAATTTCAACTCTTTGGCGCATAGATTTAAGGTTGGTCTCATTTTAAAGAAGACACTTGTTAGACTGTAGCTAAAAAATAATTATATTTATGAAAACAATGAAACAATAAATGTATATTTTAATACATCACATAAAATATGTATTTTACAAAACCTGTTTTTAGCCTAAATTGACAGAAAATCTAAGCTAAATATTCGAACATACCAAATTCCAAATTTGAAGTTTAAAATAGCTTGGGCGCAGTACCAAATATCACCGCCAGATGACATCCAGTTTTCATTGTTAAACATAGAAGGGCGCCCCCTATTTCTGTTTATTGTGATTAAATTTACAGATAATTATTCAAAACTTGACCATTATAAATCAGATTTGCTCTGTAAAGGCTGCATTTAAAAATATAAATACTGAAAGTTCCAGATGTTTTCATAATGAGATGTTGTTGGCAGCTTATATCCTGTATTTCCTCCTTCTTGTTCAG
Seq C2 exon
GTGAAGTACTGGGAGATATTCTGTCAATACTGAATAACCCAGAAGGTATAAAAATGCTGACCAATCTGCCAAGGGGAAGCGCCGAGCTGGAGCTCATGAGTCTCCTGCCAGTCTACTATGTCTATCACTACCTTGACAAGACGGAGAAATGGAACATTTTGGGGAAAGAGGCGGCCGCGAGTGAAAAGGAACTGAAGAGAAAGATGCAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021004:ENSDART00000097325:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076789=A2M_comp=PU(0.4=1.4)
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:
GCACTCCCATGCGAAAACTTG
R:
CAGCTTGCATCTTTCTCTTCAGT
Band lengths:
303-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]