GgaINT1014531 @ galGal4
Intron Retention
Gene
ENSGALG00000013234 | HAPLN2
Description
hyaluronan and proteoglycan link protein 2 [Source:HGNC Symbol;Acc:HGNC:17410]
Coordinates
chr25:508745-509371:-
Coord C1 exon
chr25:509021-509371
Coord A exon
chr25:508862-509020
Coord C2 exon
chr25:508745-508861
Length
159 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CCTCTGTCCCTGTCCTCCAGGTG
3' ss Score
12.55
Exon sequences
Seq C1 exon
CCACCCCACGCCTGCAGTACCTGCTGGAGCCCCTGCACACCGCAGTGCACACGCAGCGAGGTGCCACAGCCACGCTGCCCTGCGTGCTGCGCGCCCTGCCCCGCAACTACCGGGTGAAGTGGAGCAAGGTGGAGCCAGCCAACTATGGGGAAAGCGTTATCATCATCACCAACGGGCTGTACCATAAGAACTATGGGCCGCTGAGCCCCCGCGTGCGCCTGCGGCACAGCCACCGCTACGACGCCTCGCTCACCATCACCAACGTGGCCTTGGAGGATGAGGGACGCTACCGCTGCCAGCTGGTCAACGGGCTGGAGGACGAGAGCGTCTCGCTCACGCTGCACCTGGAGG
Seq A exon
GTAAGGGATGTAGGGAAGGTGGGGAGGCTCTAATGGGTCCCCATCGCAAAGCCGCTTGCCCCAGACTCCTGCTCAGCACCAGGTCCCTGGGACAAGGAGCCAAACCTCCATGGTGAGAACATTTCCTTCACCCTCCATCCCTCTGTCCCTGTCCTCCAG
Seq C2 exon
GTGTTGTCTTCCCCTACCAGCCCAGCAATGGGCGCTACAGATTCAACTACCACGAAGCCAAGCGTGCATGCGAGCAGCAGGATGCCCGGCTTGCCACCTACCAGCAGCTCTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013234:ENSGALT00000021612:3
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:
PF0768612=V-set=FE(92.1=100),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0768612=V-set=PD(0.8=2.5),PF0019312=Xlink=PU(40.6=97.5)
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:
TCACCAACGGGCTGTACCATA
R:
GCTTGGCTTCGTGGTAGTTGA
Band lengths:
249-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]