RnoINT0069120 @ rn6
Intron Retention
Gene
ENSRNOG00000049949 | Hapln4
Description
hyaluronan and proteoglycan link protein 4 [Source:RGD Symbol;Acc:1308408]
Coordinates
chr16:21088471-21089508:-
Coord C1 exon
chr16:21089418-21089508
Coord A exon
chr16:21088592-21089417
Coord C2 exon
chr16:21088471-21088591
Length
826 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GGCAGCTCCTGTACCCGCAGGCG
3' ss Score
6.82
Exon sequences
Seq C1 exon
GCGCGGCCCGCGGGACCAGCTGGCCCGACCGCTGTGCGCGTGCGCAGTCGGGAAGCGCACTGGCCGCTCAGCGGGGGCCACGACCAGGATG
Seq A exon
GTGAGTGCCACGCTGCACTGGGTTCTCGAATCTCACATTTGTTTCTGTCTCTCCCTTCTCTGCCTCTCTTCGCCCTTTCTTCTCTTCCTCTTGCCTTTTTTTCTTTGGCACTTTCCTTTTCTCTGCCTCTTCAATGTCTCCCCCATGTTTGGGGGTGGGGGGTGGAGAAGAGTGCTCACTTACTCTTTTTCTGTGTCTCTCCCTACTAGTCTCTCCTTCCTCTACCTCTGAGTCTTTCTCTGCATCTTTGATTCTACACCTCCATTTCTGCGTCTCTGGGCCACTGTCTCTGAGTCTCTGTCTCTGAGTCTCTGTGTCTCTGGGTCACTGTCTCTGCATCTCTGCGAGTCTCTATCTCTGGGTCTCTGCGTCTCTACGTCTCTGTCTCTGAGTCTTTGTGCCTCCAGTACTGTCTCTGGGTCTCTATCTCTGCATCTCTTCCTCTGAGTCTCTATTCCTGTGTCTCTGTCTCTGCGTCTCCACTCTGGGTCTTCGTATCTTGTTCCTTCTGTTTCTCCTGGACTGGCTCAGTAGCCCAGCCCGTTGCCACCGACCTCCCTAATCCTCTATCCCCAACCCCCGCTCGCGCTGCCAGGCTTGCTGCAGTCTCCTGGCGCGCGGATAACCTTGCGGCCCCGGTCCGCGCTGCTGCTCCCCCTTCCGTGCGCTCCGGTAACGGGGGTGGGGACTTAGGGAAAGGCGAAAGGAATCACCTGACCCTCTGGCTGCTCCACGGTAGTTGCGTGGCTGAAACCCCTTTGGGGAGGGTTGGCAGAACTAGGGACGGTCGGGGCAGTACAGCTGGAGGCAGCTCCTGTACCCGCAG
Seq C2 exon
GCGTGTGCTCCAGGAGCCCTCGGTCACCGCGCACTCTGGGCCGTGGCCTGGGGACTCCTGCTGCTGGTCCCCGTGCTCGCAGGGGCGCAGCGTGGCAGGAAGAAAGTCGTGCACGTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049949:ENSRNOT00000072565:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]